Query 002563
Match_columns 907
No_of_seqs 35 out of 37
Neff 2.1
Searched_HMMs 29240
Date Tue Mar 26 16:28:03 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/002563.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1281-1285//hhsearch_pdb/002563hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ar0_A M.ecoki, type I restric 1.0 1 1 56.5 9.0 152 179-334 101-316 (541)
2 3lkd_A Type I restriction-modi 1.0 1 1 54.8 5.9 126 207-334 194-362 (542)
3 3uzu_A Ribosomal RNA small sub 1.0 1 1 54.3 3.7 156 207-367 18-197 (279)
4 3ufb_A Type I restriction-modi 1.0 1 1 53.5 9.8 148 177-333 151-365 (530)
5 3khk_A Type I restriction-modi 1.0 1 1 51.8 7.8 122 207-334 222-399 (544)
6 2okc_A Type I restriction enzy 1.0 1 1 50.8 8.1 121 207-333 148-310 (445)
7 3s1s_A Restriction endonucleas 1.0 1 1 49.7 6.9 127 207-335 292-470 (878)
8 2ih2_A Modification methylase 1.0 1 1 49.6 7.5 118 207-333 16-167 (421)
9 2f8l_A Hypothetical protein LM 1.0 1 1 49.4 7.3 143 179-333 83-259 (344)
10 3tqs_A Ribosomal RNA small sub 1.0 1 1 45.4 2.9 150 207-367 5-179 (255)
No 1
>2ar0_A M.ecoki, type I restriction enzyme ecoki M protein; structural genomics, protein structure initiative, nysgxrc; 2.80A {Escherichia coli} SCOP: c.66.1.45 PDB: 2y7c_B 2y7h_B*
Probab=1.00 E-value=1 Score=56.50 Aligned_cols=152 Identities=18% Similarity=0.307 Sum_probs=86.8
Q ss_pred CHHHHHHHHHHHHCCCCC-----CCCCCCCCCCC------------CCCCCCCHHHHHHHHHHHHCCCCCCCCCEEECCC
Q ss_conf 935786899875101000-----12322455323------------4575440254599999764102238990886147
Q 002563 179 EPEVLSQIFKWKNKLKVY-----LAPFLHGMRYT------------SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCC 241 (907)
Q Consensus 179 eP~vL~QL~rwk~kLkvY-----LAPfLhG~RYT------------SfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcC 241 (907)
++..|.+|...-+.+... ..+-+.|.-|- ..|.+||-.+-...+++.+.+ ..+++|+|+||
T Consensus 101 ~~~~L~~li~~i~~~~~~~~~~~~~~d~lG~~YE~ll~~~a~~~~~~~G~fyTP~~iv~~mv~~l~p--~~~~~VlDPaC 178 (541)
T 2ar0_A 101 EPKQITALVSNMDSLDWYNGAHGKSRDDFGDMYEGLLQKNANETKSGAGQYFTPRPLIKTIIHLLKP--QPREVVQDPAA 178 (541)
T ss_dssp CHHHHHHHHHHHHTCCC--------------------------------CCCCCHHHHHHHHHHHCC--CTTCCEEETTC
T ss_pred CHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEECCHHHHHHHHHHHCC--CCCCEEECCCC
T ss_conf 8799999999986368754445567548999999999998775045587351889999999997466--78886832786
Q ss_pred CCCHHHHHHHHHHHHHCCC--------------CCCCCCCCCC-------------CCC-----CCCCCCCCCCCCCCCC
Q ss_conf 9653789999988760766--------------6443344577-------------888-----7662124542026888
Q 002563 242 GANDFSCLMKKKLDETGKN--------------CLYKNYDILP-------------AKN-----DFNFEKRDWMTVEPKE 289 (907)
Q Consensus 242 G~NdFS~LMk~KLe~~gK~--------------C~fKNyDliq-------------pKN-----~fnFEkrDWmtVqp~E 289 (907)
|+..|..-+-+.+.+.+.. +.+--.|+-+ .-+ ..++...|-+...+.+
T Consensus 179 GSG~fLi~a~~~l~~~~~~~~~~~~~~~~~~~~~~i~GiEid~~~~~lA~~nl~l~gi~~~~~~~~~I~~gDtL~~~~~~ 258 (541)
T 2ar0_A 179 GTAGFLIEADRYVKSQTNDLDDLDGDTQDFQIHRAFIGLELVPGTRRLALMNCLLHDIEGNLDHGGAIRLGNTLGSDGEN 258 (541)
T ss_dssp TTTHHHHHHHHHHHTTTTTTTTSCHHHHHHHHHTSEEEEESCHHHHHHHHHHHHTTTCCCBGGGTBSEEESCTTSHHHHT
T ss_pred CCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCEEEEECCCHHHHHHHHHHHHHHCCCCCCCCCCCEEECCCCCCCCCC
T ss_conf 56669999999999863010227888986421144998738999999999999983897554656776757776654334
Q ss_pred CCCCCEEEEEECCCCCCHH-------------HHHHHHHHHHHCC-CCC-EEEEECCCCC
Q ss_conf 8998802454189963013-------------3478998753113-973-8999549853
Q 002563 290 LAPGSRLIMGLNPPFGVKA-------------GLANKFINKALEF-NPK-LLILIVPPET 334 (907)
Q Consensus 290 LP~Gs~LIMGLNPPFG~kA-------------~LANKFIdkAL~F-kPK-LIILIvPpeT 334 (907)
.. .-.+|++ ||||+.+. .....|+.+++.+ +|. .+++|+|...
T Consensus 259 ~~-~fD~Vv~-NPPf~~~~~~~~~~~~~~~~~~~~~~Fl~~~l~~Lk~gGr~a~V~p~~~ 316 (541)
T 2ar0_A 259 LP-KAHIVAT-NPPFGSAAGTNITRTFVHPTSNKQLCFMQHIIETLHPGGRAAVVVPDNV 316 (541)
T ss_dssp SC-CEEEEEE-CCCCTTCSSCCCCSCCSSCCSCHHHHHHHHHHHHEEEEEEEEEEEEHHH
T ss_pred CC-CCEEEEE-CCCCCCCCCHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCEEEEEECCCC
T ss_conf 56-8759998-9894564324367525988874389999999997088988999966850
No 2
>3lkd_A Type I restriction-modification system methyltransferase subunit; Q5M500_STRT2, STU0711, NESG, SUR80, structural genomics, PSI-2; 2.25A {Streptococcus thermophilus}
Probab=1.00 E-value=1 Score=54.79 Aligned_cols=126 Identities=12% Similarity=0.165 Sum_probs=73.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHCCCC--CCCCCEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCC------------C-
Q ss_conf 345754402545999997641022--3899088614796537899999887607666443344577------------8-
Q 002563 207 TSFGRHFTKVDKLQAIVDKLHWYV--NDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP------------A- 271 (907)
Q Consensus 207 TSfGRHFTK~ekL~eIvdkLhwyV--~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliq------------p- 271 (907)
.+.|.+||-.+-.+-+++-+.... .++.+|.|+|||+..|..-+.+.+...+ .+.+--.|+-+ +
T Consensus 194 k~~G~fyTP~~Vv~lmv~ll~~~~~~~~~~~VlDPaCGSG~fLi~a~~~l~~~~-~~~i~G~Eid~~~~~lA~~Nl~l~g 272 (542)
T 3lkd_A 194 KKAGEFYTPQPVAKLMTQIAFLGREDKQGFTLYDATMGSGSLLLNAKRYSRQPQ-TVVYFGQELNTSTYNLARMNMILHG 272 (542)
T ss_dssp -CCSSCCCCHHHHHHHHHHHHTTCTTCTTCEEEETTCTTSTTGGGHHHHCSCTT-TCEEEEEESCHHHHHHHHHHHHHTT
T ss_pred CCCCEECCCHHHHHHHHHHHHCCCCCCCCCEEEECCCCHHHHHHHHHHHHHHCC-CCEEEEEECCHHHHHHHHHHHHHCC
T ss_conf 217753263899999999875046888898786410046399999999987436-7649999786999999999999849
Q ss_pred C--CCCCCCCCCCCCCC-CCCCCCCCEEEEEECCCCCCHHHH----------------------HHHHHHHHHCCC--C-
Q ss_conf 8--87662124542026-888899880245418996301334----------------------789987531139--7-
Q 002563 272 K--NDFNFEKRDWMTVE-PKELAPGSRLIMGLNPPFGVKAGL----------------------ANKFINKALEFN--P- 323 (907)
Q Consensus 272 K--N~fnFEkrDWmtVq-p~ELP~Gs~LIMGLNPPFG~kA~L----------------------ANKFIdkAL~Fk--P- 323 (907)
- +++++...|.+... |......-.+|++ ||||+.+..- .--||.|++.+- |
T Consensus 273 i~~~~~~I~~gDtL~~d~p~~~~~~fD~Iva-NPPf~~~~~~~~~~~~d~rf~~~G~~~~~s~~~~~Fl~~~l~~Lk~~g 351 (542)
T 3lkd_A 273 VPIENQFLHNADTLDEDWPTQEPTNFDGVLM-NPPYSAKWSASSGFMDDPRFSPFGKLAPKSKADFAFLLHGYYHLKQDN 351 (542)
T ss_dssp CCGGGEEEEESCTTTSCSCCSSCCCBSEEEE-CCCTTCCCCCCGGGGGSTTTGGGSSCCCTTCCHHHHHHHHHHTBCTTT
T ss_pred CCCCCCCEEECCEECCCCCCCCCCCCCEEEE-CCCCCCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCC
T ss_conf 9867664586221003432124666337973-699677666403332024666664237775066789999999808770
Q ss_pred CEEEEECCCCC
Q ss_conf 38999549853
Q 002563 324 KLLILIVPPET 334 (907)
Q Consensus 324 KLIILIvPpeT 334 (907)
-.+++|+|...
T Consensus 352 Gr~a~VlP~g~ 362 (542)
T 3lkd_A 352 GVMAIVLPHGV 362 (542)
T ss_dssp CEEEEEEETHH
T ss_pred EEEEEEECCHH
T ss_conf 06999935357
No 3
>3uzu_A Ribosomal RNA small subunit methyltransferase A; ssgcid, seattle structural genomics center for infectio disease; 1.75A {Burkholderia pseudomallei}
Probab=1.00 E-value=1 Score=54.28 Aligned_cols=156 Identities=20% Similarity=0.245 Sum_probs=98.0
Q ss_pred CCCCCCCC-HHHHHHHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHH-----HCCCCCCCCCCCCCC--CCCCCCC
Q ss_conf 34575440-254599999764102238990886147965378999998876-----076664433445778--8876621
Q 002563 207 TSFGRHFT-KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE-----TGKNCLYKNYDILPA--KNDFNFE 278 (907)
Q Consensus 207 TSfGRHFT-K~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~-----~gK~C~fKNyDliqp--KN~fnFE 278 (907)
.+||.||. ...-+..|++.+. +.+++.|+|..||...++..+-+.... ++.+..-.-.++.+. ...+.|.
T Consensus 18 k~~GQ~fL~d~~i~~~iv~~~~--~~~~~~VLEIG~G~G~lt~~La~~~~~~~~~V~avDid~~~l~~a~~~~~~~v~~i 95 (279)
T 3uzu_A 18 KRFGQNFLVDHGVIDAIVAAIR--PERGERMVEIGPGLGALTGPVIARLATPGSPLHAVELDRDLIGRLEQRFGELLELH 95 (279)
T ss_dssp CCCSCCEECCHHHHHHHHHHHC--CCTTCEEEEECCTTSTTHHHHHHHHCBTTBCEEEEECCHHHHHHHHHHHGGGEEEE
T ss_pred CCCCCCCCCCHHHHHHHHHHCC--CCCCCEEEEECCCCHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHCCCCCEEE
T ss_conf 6478201479999999999557--99959899976543899999998479768969999999899999997517885899
Q ss_pred CCCCCCCCCCCCCC----CCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCC-CCCCCCCC--CC-------
Q ss_conf 24542026888899----880245418996301334789987531139738999549853-22434578--82-------
Q 002563 279 KRDWMTVEPKELAP----GSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPET-ERLDRKES--AY------- 344 (907)
Q Consensus 279 krDWmtVqp~ELP~----Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpeT-eRLD~K~~--pY------- 344 (907)
..|.+.+...++.. ....|+| |+||.+-..+--+++.+...| ..++|++.+|. +|+-.++- -|
T Consensus 96 ~~D~~~~~~~~~~~~~~~~~~~vv~-NlPY~iss~il~~ll~~~~~~--~~~~~m~QkEva~Rl~A~pg~k~yg~lSv~~ 172 (279)
T 3uzu_A 96 AGDALTFDFGSIARPGDEPSLRIIG-NLPYNISSPLLFHLMSFAPVV--IDQHFMLQNEVVERMVAEPGTKAFSRLSVML 172 (279)
T ss_dssp ESCGGGCCGGGGSCSSSSCCEEEEE-ECCHHHHHHHHHHHGGGGGGE--EEEEEEEEHHHHHHHTCCTTSTTCCHHHHHH
T ss_pred ECCHHCCCHHHHCCCCCCCCEEEEE-CCCCCCCHHHHHHHHHCCCCC--CEEEEEEEHHHHHHHHCCCCCCCCCHHHHHH
T ss_conf 8975309846844323577648997-167525099999998456886--6899981099998772799997524899998
Q ss_pred --EEEECCCCCCCCCCEECCCCCCC
Q ss_conf --14531554347841111797566
Q 002563 345 --ELVWEDDQFLSGKSFYLPGSVDE 367 (907)
Q Consensus 345 --~LiWED~~~LsGkSFYlPGSVDv 367 (907)
-.-.+.-.-+...+|+=|--||.
T Consensus 173 q~~~~~~~~~~v~~~~F~P~PkVdS 197 (279)
T 3uzu_A 173 QYRYVMDKLIDVPPESFQPPPKVDS 197 (279)
T ss_dssp HHHEEEEEEEEECGGGEESCCSSCE
T ss_pred HHHEEEEEEEEECHHHCCCCCCCEE
T ss_conf 6566889999998188158999839
No 4
>3ufb_A Type I restriction-modification system methyltran subunit; methyltransferase activity, transferase; 1.80A {Vibrio vulnificus}
Probab=1.00 E-value=1 Score=53.53 Aligned_cols=148 Identities=18% Similarity=0.271 Sum_probs=79.7
Q ss_pred CCCHHHHHHHHHHHHCCCCCCCC--CCCCCCC-----------CCCCCCCCHHHHHHHHHHHHCCCCCCCCCEEECCCCC
Q ss_conf 06935786899875101000123--2245532-----------3457544025459999976410223899088614796
Q 002563 177 VCEPEVLSQIFKWKNKLKVYLAP--FLHGMRY-----------TSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGA 243 (907)
Q Consensus 177 vCeP~vL~QL~rwk~kLkvYLAP--fLhG~RY-----------TSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~ 243 (907)
+-+|.+|.+|...-+.+...-+- -+.|.-| -..|.+||-.+-.+-+|+-+-+ +.|++|.|+|||+
T Consensus 151 ~~~~~~L~~~i~~~~~i~~~~~~~~d~lG~~yE~ll~~~~~~~g~~GqfyTP~~Vv~lmv~l~~p--~~~~~I~DPacGs 228 (530)
T 3ufb_A 151 MINGYLLRDVVDKINGIHFNSSEEMHTLSRLYETMLREMRDAAGDSGEFYTPRPVVRFMVEVMDP--QLGESVLDPACGT 228 (530)
T ss_dssp CCCHHHHHHHHHHHHTCCCSSHHHHHHHHHHHHHHHHHHTTSSSSCCCCCCCHHHHHHHHHHHCC--CTTCCEEETTCTT
T ss_pred CCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCEECCCHHHHHHHHHHHCC--CCCCEEEECCCCC
T ss_conf 58879999999997503677740167889999999999987458686277967999999986456--8999897379995
Q ss_pred CHHHHHHHHHHHHHCCC---------CCCC---------------------CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 53789999988760766---------6443---------------------34457788876621245420268888998
Q 002563 244 NDFSCLMKKKLDETGKN---------CLYK---------------------NYDILPAKNDFNFEKRDWMTVEPKELAPG 293 (907)
Q Consensus 244 NdFS~LMk~KLe~~gK~---------C~fK---------------------NyDliqpKN~fnFEkrDWmtVqp~ELP~G 293 (907)
..|..-.-+.+.+..+. ..+- .+.-|...|++.+...++..- ..
T Consensus 229 GgfL~~a~~~l~~~~~~~~~~~~~~~~~i~G~E~~~~~~~la~mNl~lhg~~~~~I~~~dtL~~~~~~~~~~------~~ 302 (530)
T 3ufb_A 229 GGFLVEAFEHLERQCKTVEDREVLQESSIFGGEAKSLPYLLVQMNLLLHGLEYPRIDPENSLRFPLREMGDK------DR 302 (530)
T ss_dssp THHHHHHHHHHHTTCCSHHHHHHHHTCCEEEECCSHHHHHHHHHHHHHHTCSCCEEECSCTTCSCGGGCCGG------GC
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHCCC------CC
T ss_conf 569999999999843534678887664555241457999999977775288632346454456743453345------54
Q ss_pred CEEEEEECCCCCCHH---------------HHHHHHHHHHHCC-CC--------CEEEEECCCC
Q ss_conf 802454189963013---------------3478998753113-97--------3899954985
Q 002563 294 SRLIMGLNPPFGVKA---------------GLANKFINKALEF-NP--------KLLILIVPPE 333 (907)
Q Consensus 294 s~LIMGLNPPFG~kA---------------~LANKFIdkAL~F-kP--------KLIILIvPpe 333 (907)
-.+|++ |||||.+. ....-||.|++.+ ++ -.+++|+|..
T Consensus 303 fD~Il~-NPPf~~~~~~~~~~~~~~~~~~~~~~~~Fl~~~l~~Lk~~~~~l~~gGr~avVlP~g 365 (530)
T 3ufb_A 303 VDVILT-NPPFGGEEEKGILGNFPEDMQTAETAMLFLQLIMRKLKRPGHGSDNGGRAAVVVPNG 365 (530)
T ss_dssp BSEEEE-CCCSSCBCCHHHHTTSCGGGCCCBHHHHHHHHHHHHBCCTTSSSSSCCEEEEEEEHH
T ss_pred CEEEEE-CCCCCCCCCCCCCCCCCHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCH
T ss_conf 018985-699776444320025711013310678999999999634543268996499996361
No 5
>3khk_A Type I restriction-modification system methylation subunit; structural genomics, PSI-2, protein structure initiative; 2.55A {Methanosarcina mazei}
Probab=1.00 E-value=1 Score=51.78 Aligned_cols=122 Identities=18% Similarity=0.240 Sum_probs=70.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHCC-----------CCCCCCCCCCC-----
Q ss_conf 34575440254599999764102238990886147965378999998876076-----------66443344577-----
Q 002563 207 TSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGK-----------NCLYKNYDILP----- 270 (907)
Q Consensus 207 TSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK-----------~C~fKNyDliq----- 270 (907)
...|.|||-.+-.+-+|+.+-. .++ +|.|+|||+..|..-+.+.+.+.+. .+.+--.|+-+
T Consensus 222 k~~G~fyTP~~Vv~lmv~ll~p--~~~-~VlDPaCGSG~fLi~a~~~l~~~~~~~~~~~~~~~~~~~i~G~Eid~~~~~l 298 (544)
T 3khk_A 222 KQGGQYYTPKSIVTLIVEMLEP--YKG-RVYDPAMGSGGFFVSSDKFIEKHANVKHYNASEQKKQISVYGQESNPTTWKL 298 (544)
T ss_dssp CCSTTTCCCHHHHHHHHHHHCC--CSE-EEEESSCTTCHHHHHHHHHHHHHHHHHTSCHHHHGGGEEEEECCCCHHHHHH
T ss_pred CCCCEEECCHHHHHHHHHHHHC--CCC-EEECCCCCCCCHHHHHHHHHHHHCCCCCCCHHHHHHHCEEEEEECCHHHHHH
T ss_conf 5587672878899999999805--898-2867656847199999999998534456235887531037878688999999
Q ss_pred -------C--CCCCCCCCCCCCCCCCCCCC-CCCEEEEEECCCCCCHHH----------------------H------HH
Q ss_conf -------8--88766212454202688889-988024541899630133----------------------4------78
Q 002563 271 -------A--KNDFNFEKRDWMTVEPKELA-PGSRLIMGLNPPFGVKAG----------------------L------AN 312 (907)
Q Consensus 271 -------p--KN~fnFEkrDWmtVqp~ELP-~Gs~LIMGLNPPFG~kA~----------------------L------AN 312 (907)
+ ...+++...|.+.... ++ ..-.+|++ ||||+.+.. + .-
T Consensus 299 A~~Nl~l~gi~~~i~i~~gDtL~~~~--~~~~~fD~Iv~-NPPf~~~~~~~~~~~~d~r~~~g~~~~~~~~~~~~~~~~~ 375 (544)
T 3khk_A 299 AAMNMVIRGIDFNFGKKNADSFLDDQ--HPDLRADFVMT-NPPFNMKDWWHEKLADDPRWTINTNGEKRILTPPTGNANF 375 (544)
T ss_dssp HHHHHHHTTCCCBCCSSSCCTTTSCS--CTTCCEEEEEE-CCCSSCCSCCCGGGTTCGGGEECCC--CEECCCCTTCTHH
T ss_pred HHHHHHHHCCCCCCCEECCCHHCCCC--CCCCCCCEEEE-CCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCHHH
T ss_conf 99989983898542501164111752--24652467997-8996776666022200045540765433446688860439
Q ss_pred HHHHHHHCC-CCC-EEEEECCCCC
Q ss_conf 998753113-973-8999549853
Q 002563 313 KFINKALEF-NPK-LLILIVPPET 334 (907)
Q Consensus 313 KFIdkAL~F-kPK-LIILIvPpeT 334 (907)
-||.+++.+ +|. .+++|+|...
T Consensus 376 ~Fl~~~l~~Lk~gGr~aiVlP~g~ 399 (544)
T 3khk_A 376 AWMLHMLYHLAPTGSMALLLANGS 399 (544)
T ss_dssp HHHHHHHHTEEEEEEEEEEEETHH
T ss_pred HHHHHHHHHHCCCCEEEEEECCHH
T ss_conf 999999998365865899963646
No 6
>2okc_A Type I restriction enzyme stysji M protein; NP_813429.1, N-6 DNA methylase, type I restriction enzyme ST protein; HET: SAM; 2.20A {Bacteroides thetaiotaomicron vpi-5482} SCOP: c.66.1.45
Probab=1.00 E-value=1 Score=50.77 Aligned_cols=121 Identities=21% Similarity=0.348 Sum_probs=75.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHC---------CCCCCCCCCCCC-------
Q ss_conf 3457544025459999976410223899088614796537899999887607---------666443344577-------
Q 002563 207 TSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETG---------KNCLYKNYDILP------- 270 (907)
Q Consensus 207 TSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~g---------K~C~fKNyDliq------- 270 (907)
...|.|||-.+-.+.+++.+.+ ..+++|+|+|||...|...+.+.+.+.. ..+.+--.|+-+
T Consensus 148 ~~~G~fyTP~~v~~~mv~~l~~--~~~~~VlDpacGsG~fl~~~~~~l~~~~~~~~~~~~~~~~~i~G~Ei~~~~~~lA~ 225 (445)
T 2okc_A 148 SGAGQYFTPRPLIQAMVDCINP--QMGETVCDPACGTGGFLLTAYDYMKGQSASKEKRDFLRDKALHGVDNTPLVVTLAS 225 (445)
T ss_dssp TCCGGGCCCHHHHHHHHHHHCC--CTTCCEEETTCTTCHHHHHHHHHHHTCC-CCHHHHHHHHTTEEEEESCHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHHHHCC--CCCCEEECCCCCCCHHHHHHHHHHHHHCCCHHHHHHHCCEEEEEEECCHHHHHHHH
T ss_conf 6587156959999999998488--98987850587865599999999998559999987415738997968899999999
Q ss_pred -----C--C-CCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHH----------------HHHHHHHHHC-CCCC-
Q ss_conf -----8--8-87662124542026888899880245418996301334----------------7899875311-3973-
Q 002563 271 -----A--K-NDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGL----------------ANKFINKALE-FNPK- 324 (907)
Q Consensus 271 -----p--K-N~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~L----------------ANKFIdkAL~-FkPK- 324 (907)
. . ...++...|.+.....+ .-.+|++ ||||+..... ...|+.+++. .+|.
T Consensus 226 ~nl~l~g~~~~~~~i~~gD~l~~~~~~---~fD~Iv~-NPPf~~~~~~~~~~~~~~~~~~~~~~~~~fl~~~~~~Lk~gG 301 (445)
T 2okc_A 226 MNLYLHGIGTDRSPIVCEDSLEKEPST---LVDVILA-NPPFGTRPAGSVDINRPDFYVETKNNQLNFLQHMMLMLKTGG 301 (445)
T ss_dssp HHHHHTTCCSSCCSEEECCTTTSCCSS---CEEEEEE-CCCSSCCCTTCCCCCCTTSSSCCSCHHHHHHHHHHHHEEEEE
T ss_pred HHHHHHCCCCCCCCEEECCCCCCCCCC---CCCEEEE-CCCCCCCCCCCCHHHHHHCCCCCCCHHHHHHHHHHHHHCCCC
T ss_conf 999981787678977558888876567---7687997-899788645430456753387876167999999999816698
Q ss_pred EEEEECCCC
Q ss_conf 899954985
Q 002563 325 LLILIVPPE 333 (907)
Q Consensus 325 LIILIvPpe 333 (907)
.+++|+|..
T Consensus 302 ~~a~V~p~~ 310 (445)
T 2okc_A 302 RAAVVLPDN 310 (445)
T ss_dssp EEEEEEEHH
T ss_pred EEEEEECCC
T ss_conf 799997795
No 7
>3s1s_A Restriction endonuclease bpusi; PD--(D/E)XK catalytic motif, gamma-N6M-adenosine methyltrans S-adenosyl-methionine binding, hydrolase; HET: SAH; 2.35A {Bacillus pumilus}
Probab=1.00 E-value=1 Score=49.75 Aligned_cols=127 Identities=13% Similarity=0.244 Sum_probs=74.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHCCC----CCCCCCEEECCCCCCHHHHHHHHHHHHH------CCCCCCCCCCCC-------
Q ss_conf 34575440254599999764102----2389908861479653789999988760------766644334457-------
Q 002563 207 TSFGRHFTKVDKLQAIVDKLHWY----VNDGDMIVDFCCGANDFSCLMKKKLDET------GKNCLYKNYDIL------- 269 (907)
Q Consensus 207 TSfGRHFTK~ekL~eIvdkLhwy----V~~GDtiVDfcCG~NdFS~LMk~KLe~~------gK~C~fKNyDli------- 269 (907)
...|.+||..+-...+++-..+. ...+.+|+|+|||...|...+.+.+... |-+..-..+.+-
T Consensus 292 kk~GqFYTP~eLA~lMVeLA~ill~~~l~~g~rVLDPaCGSG~FLIaaA~~l~ei~~~~IyGvEIDp~Al~LAK~RlNL~ 371 (878)
T 3s1s_A 292 GHEGVVPTDIELGKVLSIISQHILGRPLTEDEVISDPAAGSGNLLATVSAGFNNVMPRQIWANDIETLFLELLSIRLGLL 371 (878)
T ss_dssp CCCBSSSCCHHHHHHHHHHHHHHHCSCCCTTCEEEETTCTTSHHHHHHHHTSTTCCGGGEEEECSCGGGHHHHHHHHHTT
T ss_pred CCCCEECCCHHHHHHHHHHHHHHCCCCCCCCCEEEECCCCCCHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHHH
T ss_conf 75846839799999999977664054578899899789875199999999831257875999989999999999889999
Q ss_pred -----CCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCHH----------------------------HHHHHHHH
Q ss_conf -----788876621245420268888998802454189963013----------------------------34789987
Q 002563 270 -----PAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKA----------------------------GLANKFIN 316 (907)
Q Consensus 270 -----qpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA----------------------------~LANKFId 316 (907)
..-+..++...|+....+... ..-.+|++ ||||+... .+...||.
T Consensus 372 lN~LlhGi~~~~I~~dD~L~~~~~~~-~kFDVVIg-NPPYg~~~~~~~e~kd~~~r~~~g~p~~p~s~~G~~DLy~aFIe 449 (878)
T 3s1s_A 372 FPQLVSSNNAPTITGEDVCSLNPEDF-ANVSVVVM-NPPYVSGVTDPAIKRKFAHKIIQLTGNRPQTLFGQIGVEALFLE 449 (878)
T ss_dssp STTTCBTTBCCEEECCCGGGCCGGGG-TTEEEEEE-CCBCCSSCCCHHHHHHHHHHHHHHHSSCCSSCSSSCCHHHHHHH
T ss_pred HHHHHCCCCCCEEEECCHHCCCCCCC-CCCCEEEE-CCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHH
T ss_conf 76664588753698240105664346-77778997-78755555651455667887655326664223345406799999
Q ss_pred HHHCCC-C-CEEEEECCCCCC
Q ss_conf 531139-7-389995498532
Q 002563 317 KALEFN-P-KLLILIVPPETE 335 (907)
Q Consensus 317 kAL~Fk-P-KLIILIvPpeTe 335 (907)
+|+.+- | -.+++|+|...-
T Consensus 450 ~Al~lLKpGGrLAfIlP~s~L 470 (878)
T 3s1s_A 450 LVTELVQDGTVISAIMPKQYL 470 (878)
T ss_dssp HHHHHSCTTCEEEEEEETHHH
T ss_pred HHHHHCCCCCEEEEEECHHHH
T ss_conf 999966899689999782886
No 8
>2ih2_A Modification methylase TAQI; DNA, DNA methyltransferase, target base partner, 5-methylpyr 2(1H)-ONE, base flipping; HET: 5PY 6MA NEA; 1.61A {Thermus aquaticus} SCOP: c.66.1.27 d.287.1.1 PDB: 2ibs_A* 2ibt_A* 2ih4_A* 2ih5_A* 2jg3_A* 2np6_A* 2np7_A* 1aqj_A* 1aqi_A* 2adm_A* 1g38_A*
Probab=1.00 E-value=1 Score=49.62 Aligned_cols=118 Identities=25% Similarity=0.426 Sum_probs=77.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCC----CCCCCCCCCC
Q ss_conf 345754402545999997641022389908861479653789999988760766644334457788----8766212454
Q 002563 207 TSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAK----NDFNFEKRDW 282 (907)
Q Consensus 207 TSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliqpK----N~fnFEkrDW 282 (907)
...|.+||-.+-.+.+++.+.. ..++.|+|+|||...|...+.+.. +..+..-..|+-+.- ....|...|+
T Consensus 16 ~~~g~~~TP~~l~~~~~~~~~~--~~~~~vLD~gcGtG~~~~~~~~~~---~~~~~i~gvDi~~~~~~~a~~~~~~~~D~ 90 (421)
T 2ih2_A 16 RSLGRVETPPEVVDFMVSLAEA--PRGGRVLEPACAHGPFLRAFREAH---GTAYRFVGVEIDPKALDLPPWAEGILADF 90 (421)
T ss_dssp -----CCCCHHHHHHHHHHCCC--CTTCEEEEETCTTCHHHHHHHHHH---CSCSEEEEEESCTTTCCCCTTEEEEESCG
T ss_pred CCCCEEECCHHHHHHHHHHHCC--CCCCEEEECCCCCHHHHHHHHHHH---CCCCEEEEEECCHHHHHHCCCCCEEECCH
T ss_conf 5386581979999999996466--999989989988759999999971---77775999989889997477882886775
Q ss_pred CCCCCCCCCCCCEEEEEECCCCCCHHH----------------------------HHHHHHHHHHCC-CC-CEEEEECCC
Q ss_conf 202688889988024541899630133----------------------------478998753113-97-389995498
Q 002563 283 MTVEPKELAPGSRLIMGLNPPFGVKAG----------------------------LANKFINKALEF-NP-KLLILIVPP 332 (907)
Q Consensus 283 mtVqp~ELP~Gs~LIMGLNPPFG~kA~----------------------------LANKFIdkAL~F-kP-KLIILIvPp 332 (907)
.+..+. ..-.+|++ ||||+.... +...|+.+++.. +| -.+++|+|.
T Consensus 91 ~~~~~~---~~fD~Ii~-NPPy~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fl~~~~~~Lk~~G~~~~i~p~ 166 (421)
T 2ih2_A 91 LLWEPG---EAFDLILG-NPPYGIVGEASKYPIHVFKAVKDLYKKAFSTWKGKYNLYGAFLEKAVRLLKPGGVLVFVVPA 166 (421)
T ss_dssp GGCCCS---SCEEEEEE-CCCCCCBSCTTTCSBCCCHHHHHHHHHHCTTCCTTCCHHHHHHHHHHHHEEEEEEEEEEEEG
T ss_pred HHCCCC---CCCCEEEE-CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCEEEEEECH
T ss_conf 446755---79888997-96956754444322224899999988763113687568999999999984889889999785
Q ss_pred C
Q ss_conf 5
Q 002563 333 E 333 (907)
Q Consensus 333 e 333 (907)
.
T Consensus 167 ~ 167 (421)
T 2ih2_A 167 T 167 (421)
T ss_dssp G
T ss_pred H
T ss_conf 8
No 9
>2f8l_A Hypothetical protein LMO1582; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE SAM; 2.20A {Listeria monocytogenes} SCOP: c.66.1.45
Probab=1.00 E-value=1 Score=49.38 Aligned_cols=143 Identities=13% Similarity=0.196 Sum_probs=74.6
Q ss_pred CHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCC--CCCCCEEECCCCCCHHHHHHHHHHHH
Q ss_conf 9357868998751010001232245532345754402545999997641022--38990886147965378999998876
Q 002563 179 EPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYV--NDGDMIVDFCCGANDFSCLMKKKLDE 256 (907)
Q Consensus 179 eP~vL~QL~rwk~kLkvYLAPfLhG~RYTSfGRHFTK~ekL~eIvdkLhwyV--~~GDtiVDfcCG~NdFS~LMk~KLe~ 256 (907)
.++.+..++-+- +..|.. .-..+|.|||-.+-..-++.-+-++. ..+.+|+|+|||...|...+.+.+.+
T Consensus 83 ~~~~~g~~ye~~------~~~~~~--~~~~~g~~~TP~~i~~~~~~ll~~l~~~~~~~~VlDp~cGsG~~l~~~~~~~~~ 154 (344)
T 2f8l_A 83 SNEEIRKGLQLA------LLKGMK--HGIQVNHQMTPDSIGFIVAYLLEKVIQKKKNVSILDPACGTANLLTTVINQLEL 154 (344)
T ss_dssp CHHHHHHHHHHH------HHHHTS--SSCCGGGCCCCHHHHHHHHHHHHHHHTTCSEEEEEETTCTTSHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHH------HHHHHH--CCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHH
T ss_conf 966999999999------999765--366268578859999999999998618899988974788834999999999997
Q ss_pred H-CCCCCCCCCCCCCC------------CCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHH--------------
Q ss_conf 0-76664433445778------------88766212454202688889988024541899630133--------------
Q 002563 257 T-GKNCLYKNYDILPA------------KNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAG-------------- 309 (907)
Q Consensus 257 ~-gK~C~fKNyDliqp------------KN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~-------------- 309 (907)
. ++.+.+--.|+-+. .-..+|...|++...+ ...-.+|++ |||||....
T Consensus 155 ~~~~~~~v~GiDi~~~~~~~a~~n~~~~g~~~~i~~~D~l~~~~---~~~fD~Ii~-NPPfg~~~~~~~~~~~~~~~~~g 230 (344)
T 2f8l_A 155 KGDVDVHASGVDVDDLLISLALVGADLQRQKMTLLHQDGLANLL---VDPVDVVIS-DLPVGYYPDDENAKTFELCREEG 230 (344)
T ss_dssp TSSCEEEEEEEESCHHHHHHHHHHHHHHTCCCEEEESCTTSCCC---CCCEEEEEE-ECCCSEESCHHHHTTSTTCCSSS
T ss_pred HCCCCCEEEEEECCHHHHHHHHHHHHHCCCCCEEEECCCCCCCC---CCCCCEEEE-CCCCCCCCCHHHHHHCCCCCCCC
T ss_conf 23887169999789899999999997379995389788988665---689538998-99978717501554045467889
Q ss_pred ---HHHHHHHHHHCC-CCC-EEEEECCCC
Q ss_conf ---478998753113-973-899954985
Q 002563 310 ---LANKFINKALEF-NPK-LLILIVPPE 333 (907)
Q Consensus 310 ---LANKFIdkAL~F-kPK-LIILIvPpe 333 (907)
+...|+.+++.. +|. .+++|+|..
T Consensus 231 ~~~~~~~~l~~~~~~Lk~gG~~~~v~p~~ 259 (344)
T 2f8l_A 231 HSFAHFLFIEQGMRYTKPGGYLFFLVPDA 259 (344)
T ss_dssp CEEHHHHHHHHHHHTEEEEEEEEEEEEGG
T ss_pred CCHHHHHHHHHHHHHHCCCCEEEEEECCH
T ss_conf 65299999999999708798899998933
No 10
>3tqs_A Ribosomal RNA small subunit methyltransferase A; protein synthesis; 1.98A {Coxiella burnetii} SCOP: c.66.1.0
Probab=1.00 E-value=1 Score=45.44 Aligned_cols=150 Identities=17% Similarity=0.241 Sum_probs=95.0
Q ss_pred CCCCCCCCH-HHHHHHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCC-----------CCCCCC
Q ss_conf 345754402-54599999764102238990886147965378999998876076664433445-----------778887
Q 002563 207 TSFGRHFTK-VDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDI-----------LPAKND 274 (907)
Q Consensus 207 TSfGRHFTK-~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDl-----------iqpKN~ 274 (907)
.+||.||.. ..-+..|++.+. +.+++.|+|..||...++..+-+.. . ..-..|+ +.....
T Consensus 5 k~~GQnFL~d~~i~~~iv~~~~--~~~~~~VLEIG~G~G~lt~~La~~~----~--~V~avEid~~~~~~~~~~~~~~~~ 76 (255)
T 3tqs_A 5 KRFGQHFLHDSFVLQKIVSAIH--PQKTDTLVEIGPGRGALTDYLLTEC----D--NLALVEIDRDLVAFLQKKYNQQKN 76 (255)
T ss_dssp ----CCEECCHHHHHHHHHHHC--CCTTCEEEEECCTTTTTHHHHTTTS----S--EEEEEECCHHHHHHHHHHHTTCTT
T ss_pred CCCCCCCCCCHHHHHHHHHHCC--CCCCCEEEEECCCCCHHHHHHHHHC----C--EEEEEECCHHHHHHHHHHHHHCCC
T ss_conf 7488340059999999999548--9995989998363309999999819----9--799998988999999998754898
Q ss_pred CCCCCCCCCCCCCCCCCC-CCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCC-CCCCCCCC--CC------
Q ss_conf 662124542026888899-880245418996301334789987531139738999549853-22434578--82------
Q 002563 275 FNFEKRDWMTVEPKELAP-GSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPET-ERLDRKES--AY------ 344 (907)
Q Consensus 275 fnFEkrDWmtVqp~ELP~-Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpeT-eRLD~K~~--pY------ 344 (907)
+.|...|.+.+...++.. +...|++ ||||.+-..+--+++.....| .-++|++.+|. +|+-.++. -|
T Consensus 77 v~~i~~D~~~~~~~~~~~~~~~~vv~-NlPY~is~~il~~ll~~~~~~--~~~~lm~QkEva~Rl~a~pg~k~yg~lsv~ 153 (255)
T 3tqs_A 77 ITIYQNDALQFDFSSVKTDKPLRVVG-NLPYNISTPLLFHLFSQIHCI--EDMHFMLQKEVVRRITAEVGSHDYGRLSVM 153 (255)
T ss_dssp EEEEESCTTTCCGGGSCCSSCEEEEE-ECCHHHHHHHHHHHHHTGGGE--EEEEEEEEHHHHHHHTCCTTSTTCSHHHHH
T ss_pred CEEEECCHHHCCHHHHCCCCCEEEEE-CCCCCCCHHHHHHHHHCCCCH--HEEEEEEEHHHHHHHHCCCCCCCCCHHHHE
T ss_conf 68999415759877845689848996-288636899999998578781--037888717789886089999741344510
Q ss_pred ---EEEECCCCCCCCCCEECCCCCCC
Q ss_conf ---14531554347841111797566
Q 002563 345 ---ELVWEDDQFLSGKSFYLPGSVDE 367 (907)
Q Consensus 345 ---~LiWED~~~LsGkSFYlPGSVDv 367 (907)
-.-.+--.-+...+|+=|-.||.
T Consensus 154 ~q~~~~~~~~~~v~~~~F~P~PkVdS 179 (255)
T 3tqs_A 154 AQYFCDNTYLFTVSPQAFTPPPRVES 179 (255)
T ss_dssp HHHHEEEEEEEEECGGGEESCCSSCE
T ss_pred EEEEEEEEEEEEECHHHCCCCCCCEE
T ss_conf 22638989999988699669999708
Done!