RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780711|ref|YP_003065124.1| signal recognition particle
protein [Candidatus Liberibacter asiaticus str. psy62]
         (461 letters)



>gnl|CDD|182793 PRK10867, PRK10867, signal recognition particle protein;
           Provisional.
          Length = 433

 Score =  664 bits (1716), Expect = 0.0
 Identities = 247/435 (56%), Positives = 322/435 (74%), Gaps = 5/435 (1%)

Query: 1   MFDNLQERLGSIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAK 60
           MF++L +RL S F+ + GKG L+E DI   LRE+R   LEADV+L VV+ F  RV+EKA 
Sbjct: 1   MFESLSDRLSSAFKKLRGKGRLTEADIKEALREVRLALLEADVNLPVVKDFIARVKEKAV 60

Query: 61  GEKILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKI 120
           G+++L+S+ PGQ VIKIV+DELVE+LG E+ EL+L A  P VIM+VGLQG+GKTTT  K+
Sbjct: 61  GQEVLKSLTPGQQVIKIVNDELVEILGGENSELNLAAKPPTVIMMVGLQGAGKTTTAGKL 120

Query: 121 AYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSAR 180
           A +LK  KKKK+L+ + DV+RPAA EQL+ LGEQI V        Q P  IA  A + A+
Sbjct: 121 AKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEEAK 180

Query: 181 DGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIV 240
           + GYD VI+DTAGR HI++ LM E+  IK+  NP EILLV DA+TGQDAV+ A+ F++ +
Sbjct: 181 ENGYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQDAVNTAKAFNEAL 240

Query: 241 DLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILGMGDV 300
            LTG+ILT++DGD RGGAALS+R VTGKPIK IGTGEK++DLE F PDR+A+RILGMGDV
Sbjct: 241 GLTGVILTKLDGDARGGAALSIRAVTGKPIKFIGTGEKLDDLEPFHPDRMASRILGMGDV 300

Query: 301 VSLVEKAARNLNEKQAALTAKKIAKGKFDLEDLAEQFRQTQKIGGIGSILRMLPGMPSLK 360
           +SL+EKA   ++E++A   AKK+ KGKFDLED  EQ +Q +K+GG+GS+L MLPGM ++K
Sbjct: 301 LSLIEKAQEVVDEEKAEKLAKKLKKGKFDLEDFLEQLQQMKKMGGLGSLLGMLPGMGNMK 360

Query: 361 QNIMPSSFDDKTINHHIAIIASMTKEERANPSIIKHSRKKRIAAGSGTNAAKINKLLKLH 420
             +     DDK +    AII SMT +ERANP I+  SRK+RIA GSGT   ++N+LLK  
Sbjct: 361 AQL-----DDKELKRIEAIINSMTPKERANPDILNGSRKRRIAKGSGTTVQEVNRLLKQF 415

Query: 421 RQVAEMMHSTQGLGG 435
            Q+ +MM   +G GG
Sbjct: 416 EQMKKMMKKMKGKGG 430


>gnl|CDD|162133 TIGR00959, ffh, signal recognition particle protein.  This model
           represents Ffh (Fifty-Four Homolog), the protein
           component that forms the bacterial (and organellar)
           signal recognition particle together with a 4.5S RNA.
           Ffh is a GTPase homologous to eukaryotic SRP54 and also
           to the GTPase FtsY (TIGR00064) that is the receptor for
           the signal recognition particle.
          Length = 428

 Score =  568 bits (1467), Expect = e-163
 Identities = 228/426 (53%), Positives = 320/426 (75%)

Query: 2   FDNLQERLGSIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKG 61
           F++L ERL  IF+ ++G+G+++E +I   LREIR   LEADV+L+VV+ F K+V+EKA G
Sbjct: 1   FESLSERLQRIFKKLSGRGTITEKNIKEALREIRLALLEADVNLQVVKDFIKKVKEKALG 60

Query: 62  EKILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIA 121
           +++L+S+ PGQ  IKIVH+ELV +LG E+  L+L    P VI++VGLQGSGKTTT  K+A
Sbjct: 61  QEVLKSLSPGQQFIKIVHEELVAILGGENASLNLAKKPPTVILMVGLQGSGKTTTCGKLA 120

Query: 122 YHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARD 181
           Y+LK  + KK+L+ + D++RPAA EQL+ LG+Q+ V    +   QSP +IA RA + A++
Sbjct: 121 YYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALEYAKE 180

Query: 182 GGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVD 241
            G+D VI+DTAGR  I++ LM+E++ IK + NP EILLV DA+TGQDAV+ A+ F++ + 
Sbjct: 181 NGFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQDAVNTAKTFNERLG 240

Query: 242 LTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILGMGDVV 301
           LTG++LT++DGD RGGAALS+R+VTGKPIK IG GEKI+DLE F P+R+A+RILGMGD++
Sbjct: 241 LTGVVLTKLDGDARGGAALSVRSVTGKPIKFIGVGEKIDDLEPFHPERMASRILGMGDIL 300

Query: 302 SLVEKAARNLNEKQAALTAKKIAKGKFDLEDLAEQFRQTQKIGGIGSILRMLPGMPSLKQ 361
           SLVEKA   ++E++A   A+K+ KG+FDLED  EQ RQ +K+G + S+L+M+PGM  +K 
Sbjct: 301 SLVEKAQEVVDEEEAKKLAEKMKKGQFDLEDFLEQLRQIKKMGPLSSLLKMIPGMGGVKP 360

Query: 362 NIMPSSFDDKTINHHIAIIASMTKEERANPSIIKHSRKKRIAAGSGTNAAKINKLLKLHR 421
           ++     D+K      AII+SMT EER NP I+  SR+KRIAAGSGT    +NKL+K   
Sbjct: 361 SLSDLELDEKQFKRIEAIISSMTPEERRNPKILNPSRRKRIAAGSGTTVQDVNKLIKRFE 420

Query: 422 QVAEMM 427
           Q+ +MM
Sbjct: 421 QMKKMM 426


>gnl|CDD|179118 PRK00771, PRK00771, signal recognition particle protein Srp54;
           Provisional.
          Length = 437

 Score =  420 bits (1082), Expect = e-118
 Identities = 176/444 (39%), Positives = 269/444 (60%), Gaps = 9/444 (2%)

Query: 5   LQERLGSIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKI 64
           L E L    + + GK  + E  +   +++I+R  L+ADV++++V+  SK ++E+A  E+ 
Sbjct: 1   LGESLRDALKKLAGKSRIDEKTVKEVVKDIQRALLQADVNVKLVKELSKSIKERALEEEP 60

Query: 65  LRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHL 124
            + + P + VIKIV++ELV++LG+E+ E  +    P  IMLVGLQGSGKTTT AK+A + 
Sbjct: 61  PKGLTPREHVIKIVYEELVKLLGEET-EPLVLPLKPQTIMLVGLQGSGKTTTAAKLARYF 119

Query: 125 KTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGY 184
           K    K  L+A+ D +RPAA +QL+ L E+I V        +   +IA    +  +    
Sbjct: 120 KKKGLKVGLVAA-DTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKFKK--A 176

Query: 185 DAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVDLTG 244
           D +I+DTAGR+ + + L++E+ EIK    P E+LLV DA  GQ A + A+ F + V + G
Sbjct: 177 DVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQQAKNQAKAFHEAVGIGG 236

Query: 245 IILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILGMGDVVSLV 304
           II+T++DG  +GG ALS    TG PIK IGTGEKI+DLE F PDR  +R+LGMGD+ SL+
Sbjct: 237 IIITKLDGTAKGGGALSAVAETGAPIKFIGTGEKIDDLERFDPDRFISRLLGMGDLESLL 296

Query: 305 EKAARNLNEKQAALTAKKIAKGKFDLEDLAEQFRQTQKIGGIGSILRMLPGM-PSLKQNI 363
           EK    L+E++     +K+ KGKF L+D+ +Q     K+G +  IL+MLPG+   L    
Sbjct: 297 EKVEEALDEEEEEKDVEKMMKGKFTLKDMYKQLEAMNKMGPLKQILQMLPGLGGKLPDEA 356

Query: 364 MPSSFDDKTINHHIAIIASMTKEERANPSIIKHSRKKRIAAGSGTNAAKINKLLKLHRQV 423
           +  +  ++ +  + AI+ SMT+EE  NP II  SR +RIA GSGT    + +LLK ++ +
Sbjct: 357 LEVT--EEKLKKYKAIMDSMTEEELENPEIINASRIRRIARGSGTTVEDVRELLKYYKMM 414

Query: 424 AEMMHSTQGLGGNALTQQIMGRLK 447
            + M   +   G     ++M +  
Sbjct: 415 KKAMKQLKKGKGK--MGKLMKQFG 436


>gnl|CDD|184937 PRK14974, PRK14974, cell division protein FtsY; Provisional.
          Length = 336

 Score =  227 bits (580), Expect = 6e-60
 Identities = 109/282 (38%), Positives = 166/282 (58%), Gaps = 11/282 (3%)

Query: 22  LSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQMVIKIVHDE 81
           + E DI + L E+    LE+DV+LEV +   + ++EK  G+K+ R     ++V   + + 
Sbjct: 58  IKEKDIEDLLEELELELLESDVALEVAEEILESLKEKLVGKKVKRGEDVEEIVKNALKEA 117

Query: 82  LVEVLGKES----IELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASL 137
           L+EVL        IE   +   P+VI+ VG+ G+GKTTT AK+AY+LK      +++A+ 
Sbjct: 118 LLEVLSVGDLFDLIEEIKSKGKPVVIVFVGVNGTGKTTTIAKLAYYLKK-NGFSVVIAAG 176

Query: 138 DVHRPAAQEQLRYLGEQIQVDTLEVIPEQ---SPEKIAIRATQSARDGGYDAVILDTAGR 194
           D  R  A EQL    E++ V   +VI  +    P  +A  A + A+  G D V++DTAGR
Sbjct: 177 DTFRAGAIEQLEEHAERLGV---KVIKHKYGADPAAVAYDAIEHAKARGIDVVLIDTAGR 233

Query: 195 NHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTRMDGDG 254
            H + +LM E+ +I  +T P  ++ V DAL G DAV  AR F++ V + G+ILT++D D 
Sbjct: 234 MHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQAREFNEAVGIDGVILTKVDADA 293

Query: 255 RGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILG 296
           +GGAALS+  V GKPI  +G G+  +DL  F PD   +++LG
Sbjct: 294 KGGAALSIAYVIGKPILFLGVGQGYDDLIPFDPDWFVDKLLG 335


>gnl|CDD|130492 TIGR01425, SRP54_euk, signal recognition particle protein SRP54.
           This model represents examples from the eukaryotic
           cytosol of the signal recognition particle protein
           component, SRP54. This GTP-binding protein is a
           component of the eukaryotic signal recognition particle,
           along with several other protein subunits and a 7S RNA.
           Some species, including Arabidopsis, have several
           closely related forms. The extreme C-terminal region is
           glycine-rich and lower in complexity, poorly conserved
           between species, and excluded from this model.
          Length = 429

 Score =  226 bits (578), Expect = 9e-60
 Identities = 131/431 (30%), Positives = 225/431 (52%), Gaps = 13/431 (3%)

Query: 4   NLQERLGSIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEK 63
           +L   + S  ++++    + E  ++  L+EI    LE+DV++++V+   + +++    E+
Sbjct: 4   DLGSSITSALRSMSNATVIDEEVLNAMLKEICTALLESDVNIKLVRQLRENIKKAINLEE 63

Query: 64  ILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYH 123
           +   +   +M+   V  EL  ++               VIM VGLQGSGKTTT  K+AY+
Sbjct: 64  MASGLNKRKMIQHAVFKELCNLVDPGVEAFTPKKGKQNVIMFVGLQGSGKTTTCTKLAYY 123

Query: 124 LKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGG 183
            +  K  K  +   D  R  A +QL+    + ++       E  P KIA    +  +   
Sbjct: 124 YQR-KGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFKKEN 182

Query: 184 YDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVDLT 243
           +D +I+DT+GR+   DSL +E+ ++     P  I+ V D   GQ A   A+ F   VD+ 
Sbjct: 183 FDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQAKAFKDSVDVG 242

Query: 244 GIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILGMGDVVSL 303
            +I+T++DG  +GG ALS    T  PI  IGTGE I+D E F      +++LGMGD+  L
Sbjct: 243 SVIITKLDGHAKGGGALSAVAATKSPIIFIGTGEHIDDFEIFKTQPFISKLLGMGDIEGL 302

Query: 304 VEKAAR-NLNEKQAALTAKKIAKGKFDLEDLAEQFRQTQKIGGIGSILRMLPGMPSLKQN 362
           ++K     L++ + AL  +K+ +G F L D+ EQF+   K+G +G IL M+PG      +
Sbjct: 303 IDKVQDLKLDDNEKALI-EKLKEGTFTLRDMYEQFQNLLKMGPLGQILSMIPG---FSTD 358

Query: 363 IMPSSFDDKT---INHHIAIIASMTKEE--RANPSII--KHSRKKRIAAGSGTNAAKINK 415
            M    ++++   I   + I+ SMT +E    +  +   + SR +R+A GSG +   + +
Sbjct: 359 FMSKGNEEESMAKIKKLMTIMDSMTDQELDSTDGKVFSKQPSRIQRVARGSGRSIRDVQE 418

Query: 416 LLKLHRQVAEM 426
           LL+ +++ A+M
Sbjct: 419 LLEQYKKFAQM 429


>gnl|CDD|161686 TIGR00064, ftsY, signal recognition particle-docking protein FtsY. 
           There is a weak division between FtsY and SRP54; both
           are GTPases. In E.coli, ftsY is an essential gene
           located in an operon with cell division genes ftsE and
           ftsX, but its apparent function is as the signal
           recognition particle docking protein.
          Length = 272

 Score =  214 bits (548), Expect = 3e-56
 Identities = 103/276 (37%), Positives = 156/276 (56%), Gaps = 11/276 (3%)

Query: 26  DISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQMVIKIVHDELVEV 85
           D  +   E+    LE+DV  EVV+   + ++++ KG+K+    +  +++ +I+ + L E+
Sbjct: 2   DDEDFFEELEEILLESDVGYEVVEKIIEALKKELKGKKV----KDAELLKEILKEYLKEI 57

Query: 86  LGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQ 145
           L +  +EL +    P VI+ VG+ G GKTTT AK+A  LK  + K +L+A+ D  R AA 
Sbjct: 58  LKETDLELIVEENKPNVILFVGVNGVGKTTTIAKLANKLKK-QGKSVLLAAGDTFRAAAI 116

Query: 146 EQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEI 205
           EQL    +++ VD ++      P  +A  A Q A+    D V++DTAGR     +LM E+
Sbjct: 117 EQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKAKARNIDVVLIDTAGRLQNKVNLMDEL 176

Query: 206 SEIK------SLTNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAA 259
            +IK          P E+LLV DA TGQ+A+  A+ F++ V LTGIILT++DG  +GG  
Sbjct: 177 KKIKRVIKKVDKDAPDEVLLVLDATTGQNALEQAKVFNEAVGLTGIILTKLDGTAKGGII 236

Query: 260 LSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRIL 295
           LS+      PIK IG GEKI+DL  F  D     + 
Sbjct: 237 LSIAYELKLPIKFIGVGEKIDDLAPFDADWFVEALF 272


>gnl|CDD|182441 PRK10416, PRK10416, signal recognition particle-docking protein
           FtsY; Provisional.
          Length = 318

 Score =  207 bits (529), Expect = 6e-54
 Identities = 111/310 (35%), Positives = 175/310 (56%), Gaps = 24/310 (7%)

Query: 1   MFDNLQERLGSIFQNITGK--GSLSETDIS-NTLREIRRTFLEADVSLEVVQSFSKRVQE 57
            F+ L++ L    +N      G  ++  I  + L E+    +EADV +E  +   + ++E
Sbjct: 16  WFERLKKGLSKTRENFGEGINGLFAKKKIDEDLLEELEELLIEADVGVETTEEIIEELRE 75

Query: 58  KAKGEKILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTT 117
           + K + +    +  + + +++ +EL E+L      L++    P VI++VG+ G GKTTT 
Sbjct: 76  RVKRKNL----KDPEELKELLKEELAEILEPVEKPLNIEEKKPFVILVVGVNGVGKTTTI 131

Query: 118 AKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVI--PEQS-PEKIAIR 174
            K+A+  K  + KK+L+A+ D  R AA EQL+  GE++ V    VI   E + P  +A  
Sbjct: 132 GKLAHKYKA-QGKKVLLAAGDTFRAAAIEQLQVWGERVGVP---VIAQKEGADPASVAFD 187

Query: 175 ATQSARDGGYDAVILDTAGR--NHINDSLMQEISEIKSLTN------PHEILLVADALTG 226
           A Q+A+  G D +I+DTAGR  N  N  LM+E+ +IK +        PHE+LLV DA TG
Sbjct: 188 AIQAAKARGIDVLIIDTAGRLHNKTN--LMEELKKIKRVIKKADPDAPHEVLLVLDATTG 245

Query: 227 QDAVHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDLENFF 286
           Q+A+  A+ F + V LTGIILT++DG  +GG   ++    G PIK IG GE I+DL+ F 
Sbjct: 246 QNALSQAKAFHEAVGLTGIILTKLDGTAKGGVVFAIADELGIPIKFIGVGEGIDDLQPFD 305

Query: 287 PDRIANRILG 296
            +   + +LG
Sbjct: 306 AEEFVDALLG 315


>gnl|CDD|180213 PRK05703, flhF, flagellar biosynthesis regulator FlhF; Validated.
          Length = 424

 Score = 88.4 bits (220), Expect = 4e-18
 Identities = 66/271 (24%), Positives = 130/271 (47%), Gaps = 28/271 (10%)

Query: 33  EIRRTFLEADVSLEVVQSFSKRVQEK--AKGEKILRSIQPGQMVIKIVHDELVEVLGKES 90
           E+ +    + +S E+ +   K + E    +     R +   +++  ++   + ++L +  
Sbjct: 165 ELYKRLKRSGLSPEIAEKLLKLLLEHMPPRERTAWRYLL--ELLANMIPVRVEDILKQGG 222

Query: 91  IELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTL-KKKKILMASLDVHRPAAQEQLR 149
           +           + LVG  G GKTTT AK+A     L  KKK+ + +LD +R  A EQL+
Sbjct: 223 V-----------VALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLK 271

Query: 150 YLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISE-I 208
              + + +    V   +   K    A +  RD   D +++DTAGR+  +  L++E+   I
Sbjct: 272 TYAKIMGIPVEVVYDPKELAK----ALEQLRD--CDVILIDTAGRSQRDKRLIEELKALI 325

Query: 209 KSLTNPHEILLVADALTGQ--DAVHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVT 266
           +    P ++ LV  + T +  D   + ++F   + L G+I T++D     G+ LS+   +
Sbjct: 326 EFSGEPIDVYLVL-SATTKYEDLKDIYKHF-SRLPLDGLIFTKLDETSSLGSILSLLIES 383

Query: 267 GKPIKAIGTGEKI-NDLENFFPDRIANRILG 296
           G PI  +  G+++ +D++   P+ +   +LG
Sbjct: 384 GLPISYLTNGQRVPDDIKVANPEELVRLLLG 414


>gnl|CDD|163294 TIGR03499, FlhF, flagellar biosynthetic protein FlhF. 
          Length = 282

 Score = 69.6 bits (171), Expect = 1e-12
 Identities = 47/177 (26%), Positives = 74/177 (41%), Gaps = 24/177 (13%)

Query: 21  SLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQMVIKIVHD 80
            L+         ++    L A VS E+ +   +++ E+A  E   R              
Sbjct: 126 GLAWLQRDPEGAKLLERLLRAGVSPELARELLEKLPERADAEDAWR-------------- 171

Query: 81  ELVEVLGKESIELDLNAPS---PLVIMLVGLQGSGKTTTTAKIAYHLK-TLKKKKILMAS 136
            L E L K                VI LVG  G GKTTT AK+A         KK+ + +
Sbjct: 172 WLREALEKMLPVKPEEDEILEQGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALIT 231

Query: 137 LDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAG 193
            D +R  A EQL+   + + V  ++V   + P+++  +A    RD   D +++DTAG
Sbjct: 232 TDTYRIGAVEQLKTYAKILGVP-VKVA--RDPKELR-KALDRLRD--KDLILIDTAG 282


>gnl|CDD|183360 PRK11889, flhF, flagellar biosynthesis regulator FlhF; Provisional.
          Length = 436

 Score = 66.2 bits (161), Expect = 2e-11
 Identities = 50/178 (28%), Positives = 84/178 (47%), Gaps = 6/178 (3%)

Query: 103 IMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEV 162
           I L+G  G GKTTT AK+A+     KKK +   + D  R    +QL+   + I  + + V
Sbjct: 244 IALIGPTGVGKTTTLAKMAWQFHG-KKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAV 302

Query: 163 IPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVAD 222
             E +  +      + AR    D +++DTAG+N+     ++E+ E      P  I L   
Sbjct: 303 RDEAAMTRALTYFKEEAR---VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLS 359

Query: 223 A-LTGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKI 279
           A +  +D + +  NF K + + GI+ T+ D     G  L +  V+  PI  +  G+ +
Sbjct: 360 ASMKSKDMIEIITNF-KDIHIDGIVFTKFDETASSGELLKIPAVSSAPIVLMTDGQDV 416


>gnl|CDD|75717 PRK06731, flhF, flagellar biosynthesis regulator FlhF; Validated.
          Length = 270

 Score = 64.4 bits (156), Expect = 7e-11
 Identities = 56/222 (25%), Positives = 100/222 (45%), Gaps = 6/222 (2%)

Query: 59  AKGEKILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTA 118
           A  EK+    +   M+ + V + ++E +       ++       I L+G  G GKTTT A
Sbjct: 34  AYAEKLKVKFENATMITEEVIEYILEDMSSHFNTENVFEKEVQTIALIGPTGVGKTTTLA 93

Query: 119 KIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQS 178
           K+A+     KKK +   + D  R    +QL+   + I  + + V  E +  +      + 
Sbjct: 94  KMAWQFHG-KKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEE 152

Query: 179 ARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADA-LTGQDAVHLARNFD 237
           AR    D +++DTAG+N+     ++E+ E      P  I L   A +  +D + +  NF 
Sbjct: 153 AR---VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNF- 208

Query: 238 KIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKI 279
           K + + GI+ T+ D     G  L +  V+  PI  +  G+ +
Sbjct: 209 KDIHIDGIVFTKFDETASSGELLKIPAVSSAPIVLMTDGQDV 250


>gnl|CDD|183704 PRK12726, PRK12726, flagellar biosynthesis regulator FlhF;
           Provisional.
          Length = 407

 Score = 60.1 bits (145), Expect = 1e-09
 Identities = 55/215 (25%), Positives = 99/215 (46%), Gaps = 13/215 (6%)

Query: 87  GKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKIL-MASLDVHRPAAQ 145
           GK ++E   +  +  +I L+G  G GKTTT  K+ + L  LK+ + +   + D  R  A 
Sbjct: 193 GKLAVEDSFDLSNHRIISLIGQTGVGKTTTLVKLGWQL--LKQNRTVGFITTDTFRSGAV 250

Query: 146 EQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEI 205
           EQ +   +++ V   E+I   SP ++             D +++DT GRN++ +  + EI
Sbjct: 251 EQFQGYADKLDV---ELIVATSPAELEEAVQYMTYVNCVDHILIDTVGRNYLAEESVSEI 307

Query: 206 SEIKSLTNPH-EILLVADALTGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRT 264
           S    + +P       +  +   D + +     +I  + G I+T+MD   R G   ++  
Sbjct: 308 SAYTDVVHPDLTCFTFSSGMKSADVMTILPKLAEI-PIDGFIITKMDETTRIGDLYTVMQ 366

Query: 265 VTGKPIKAIGTGEKINDLENFFPDR---IANRILG 296
            T  P+  +  G+ I   EN F  +   +A R +G
Sbjct: 367 ETNLPVLYMTDGQNIT--ENIFRPKSRWLAERFVG 399


>gnl|CDD|183705 PRK12727, PRK12727, flagellar biosynthesis regulator FlhF;
           Provisional.
          Length = 559

 Score = 59.6 bits (144), Expect = 2e-09
 Identities = 57/202 (28%), Positives = 94/202 (46%), Gaps = 12/202 (5%)

Query: 85  VLGKESIELDLNAPSPL----VIMLVGLQGSGKTTTTAKIAYH-LKTLKKKKILMASLDV 139
           +LG  S  L +    PL    VI LVG  G+GKTTT AK+A         + + + + D 
Sbjct: 331 MLGLLSKRLPVAPVDPLERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDT 390

Query: 140 HRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHIND 199
            R   +EQL   G Q+ +   E    +S   +  R     RD  Y  V++DTAG    + 
Sbjct: 391 QRVGGREQLHSYGRQLGIAVHEADSAESLLDLLER----LRD--YKLVLIDTAGMGQRDR 444

Query: 200 SLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAA 259
           +L  +++ +++      +L++       D   + R F       G++LT++D  GR G+A
Sbjct: 445 ALAAQLNWLRAARQVTSLLVLPANAHFSDLDEVVRRFAH-AKPQGVVLTKLDETGRFGSA 503

Query: 260 LSMRTVTGKPIKAIGTGEKIND 281
           LS+      PI  +  G+++ D
Sbjct: 504 LSVVVDHQMPITWVTDGQRVPD 525


>gnl|CDD|173186 PRK14723, flhF, flagellar biosynthesis regulator FlhF; Provisional.
          Length = 767

 Score = 53.3 bits (128), Expect = 1e-07
 Identities = 53/185 (28%), Positives = 88/185 (47%), Gaps = 16/185 (8%)

Query: 102 VIMLVGLQGSGKTTTTAKIA--YHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDT 159
           V+ LVG  G GKTTTTAK+A     +     ++ + + D  R  A EQLR  G  + V  
Sbjct: 187 VLALVGPTGVGKTTTTAKLAARCVARE-GADQLALLTTDSFRIGALEQLRIYGRILGV-- 243

Query: 160 LEVIPEQSPEKIA-IRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEIL 218
               P  + +  A +R   +A  G    V++DT G +  + ++ ++I+ +  +  P   L
Sbjct: 244 ----PVHAVKDAADLRFALAAL-GDKHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRL 298

Query: 219 LVADALTGQDA----VHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIG 274
           L+ +A +  D     VH  R+     D+ G I+T++D     G AL        P+  + 
Sbjct: 299 LLLNAASHGDTLNEVVHAYRH-GAGEDVDGCIITKLDEATHLGPALDTVIRHRLPVHYVS 357

Query: 275 TGEKI 279
           TG+K+
Sbjct: 358 TGQKV 362


>gnl|CDD|173185 PRK14722, flhF, flagellar biosynthesis regulator FlhF; Provisional.
          Length = 374

 Score = 51.6 bits (123), Expect = 4e-07
 Identities = 46/188 (24%), Positives = 86/188 (45%), Gaps = 16/188 (8%)

Query: 102 VIMLVGLQGSGKTTTTAKIAYH-LKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTL 160
           V  L+G  G GKTTTTAK+A   +      K+ + + D +R    EQLR  G+ + V  +
Sbjct: 139 VFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGV-PV 197

Query: 161 EVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLV 220
             + +    ++A+   ++        V++DT G +  + ++  +I+ +     P + LL+
Sbjct: 198 HAVKDGGDLQLALAELRNKH-----MVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLL 252

Query: 221 ADALTGQDAVH---------LARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIK 271
            +A +  D ++           +    + DL G ILT++D     G  L        P+ 
Sbjct: 253 LNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEASNLGGVLDTVIRYKLPVH 312

Query: 272 AIGTGEKI 279
            + TG+K+
Sbjct: 313 YVSTGQKV 320


>gnl|CDD|183703 PRK12724, PRK12724, flagellar biosynthesis regulator FlhF;
           Provisional.
          Length = 432

 Score = 50.3 bits (120), Expect = 9e-07
 Identities = 47/182 (25%), Positives = 82/182 (45%), Gaps = 15/182 (8%)

Query: 78  VHDELVEVLGKE-SIELDLNAPSPL----VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKI 132
           V +  V  L +  S++ DL + +      V+  VG  GSGKTT+ AK+A        K +
Sbjct: 196 VTERAVTYLEERVSVDSDLFSGTGKNQRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSV 255

Query: 133 LMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTA 192
            + + D +R AA EQL+   + +       +P    + I       ARDG  + +++DTA
Sbjct: 256 SLYTTDNYRIAAIEQLKRYADTMG------MPFYPVKDIKKFKETLARDGS-ELILIDTA 308

Query: 193 GRNHINDSLMQEISEIKSL---TNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTR 249
           G +H N   ++ +    S     +  E LLV  + +            + ++   I+LT+
Sbjct: 309 GYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAYESLNYRRILLTK 368

Query: 250 MD 251
           +D
Sbjct: 369 LD 370


>gnl|CDD|128665 smart00382, AAA, ATPases associated with a variety of cellular
           activities.  AAA - ATPases associated with a variety of
           cellular activities. This profile/alignment only detects
           a fraction of this vast family. The poorly conserved
           N-terminal helix is missing from the alignment.
          Length = 148

 Score = 47.8 bits (113), Expect = 5e-06
 Identities = 30/154 (19%), Positives = 48/154 (31%), Gaps = 14/154 (9%)

Query: 99  SPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVD 158
              VI++VG  GSGKTT    +A  L       ++    +       +QL      + + 
Sbjct: 1   PGEVILIVGPPGSGKTTLARALARELGP-PGGGVIYIDGEDILEEVLDQL------LLII 53

Query: 159 TLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHE-- 216
                   S E     A   AR    D +ILD        +     +   +         
Sbjct: 54  VGGKKASGSGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKS 113

Query: 217 -----ILLVADALTGQDAVHLARNFDKIVDLTGI 245
                ++L  +         L R FD+ + L  I
Sbjct: 114 EKNLTVILTTNDEKDLGPALLRRRFDRRIVLLLI 147


>gnl|CDD|173184 PRK14721, flhF, flagellar biosynthesis regulator FlhF; Provisional.
          Length = 420

 Score = 40.3 bits (94), Expect = 0.001
 Identities = 41/161 (25%), Positives = 76/161 (47%), Gaps = 9/161 (5%)

Query: 102 VIMLVGLQGSGKTTTTAKIAYH-LKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTL 160
           V  L+G  G GKTTTTAK+A   +      K+ + + D +R    EQLR  G+ + V ++
Sbjct: 193 VYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGV-SV 251

Query: 161 EVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLV 220
             I + +  ++ +   +     G   V++DT G +  +  L ++I+ +       + LL+
Sbjct: 252 RSIKDIADLQLMLHELR-----GKHMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLL 306

Query: 221 ADAL-TGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAAL 260
            +A  +G     +   +     + G I+T++D     G AL
Sbjct: 307 LNATSSGDTLDEVISAYQG-HGIHGCIITKVDEAASLGIAL 346


>gnl|CDD|180787 PRK06995, flhF, flagellar biosynthesis regulator FlhF; Validated.
          Length = 484

 Score = 37.7 bits (88), Expect = 0.007
 Identities = 22/58 (37%), Positives = 32/58 (55%), Gaps = 3/58 (5%)

Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKK--KKILMASLDVHRPAAQEQLRYLGEQIQV 157
           V  L+G  G GKTTTTAK+A     ++    K+ + + D +R    EQLR  G+ + V
Sbjct: 258 VFALMGPTGVGKTTTTAKLAARC-VMRHGASKVALLTTDSYRIGGHEQLRIYGKILGV 314


>gnl|CDD|183702 PRK12723, PRK12723, flagellar biosynthesis regulator FlhF;
           Provisional.
          Length = 388

 Score = 37.2 bits (86), Expect = 0.008
 Identities = 31/112 (27%), Positives = 58/112 (51%), Gaps = 12/112 (10%)

Query: 100 PLVIMLVGLQGSGKTTTTAKIA--YHLKTLKKKK-ILMASLDVHRPAAQEQLRYLGEQIQ 156
             V +LVG  G GKTTT AK+A  Y + +  K   I + ++D +R  A++Q++  G+ + 
Sbjct: 174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMG 233

Query: 157 VDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAG---RNHINDSLMQEI 205
                 IP ++ E       +  +   +D V++DT G   ++ +  + M+E+
Sbjct: 234 ------IPVKAIESFKDLKEEITQSKDFDLVLVDTIGKSPKDFMKLAEMKEL 279


>gnl|CDD|178393 PLN02796, PLN02796, D-glycerate 3-kinase.
          Length = 347

 Score = 35.5 bits (82), Expect = 0.028
 Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 1/54 (1%)

Query: 97  APSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAA-QEQLR 149
              PLVI +   QG GKTT    + Y      ++   ++  D +  AA Q +L 
Sbjct: 97  EIPPLVIGISAPQGCGKTTLVFALVYLFNATGRRAASLSIDDFYLTAADQAKLA 150


>gnl|CDD|178608 PLN03046, PLN03046, D-glycerate 3-kinase; Provisional.
          Length = 460

 Score = 34.9 bits (80), Expect = 0.049
 Identities = 30/107 (28%), Positives = 42/107 (39%), Gaps = 22/107 (20%)

Query: 100 PLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQ------------ 147
           PLVI     QG GKTT    + Y  +   +K   + S+D     A+ Q            
Sbjct: 212 PLVIGFSAPQGCGKTTLVFALDYLFRVTGRKSATL-SIDDFYLTAEGQAELRERNPGNAL 270

Query: 148 LRYLGE------QIQVDTLEVIPEQSPEKIAI---RATQSARDGGYD 185
           L   G       Q  V+TLE + + + E I +   R  +SA  G  D
Sbjct: 271 LELRGNAGSHDLQFSVETLEALSKLTKEGIKMKVPRYDKSAYSGRGD 317


>gnl|CDD|162382 TIGR01479, GMP_PMI, mannose-1-phosphate
           guanylyltransferase/mannose-6-phosphate isomerase.  This
           enzyme is known to be bifunctional, as both
           mannose-6-phosphate isomerase (EC 5.3.1.8) (PMI) and
           mannose-1-phosphate guanylyltransferase (EC 2.7.7.22) in
           Pseudomonas aeruginosa, Xanthomonas campestris, and
           Gluconacetobacter xylinus. The literature on the enzyme
           from E. coli attributes mannose-6-phosphate isomerase
           activity to an adjacent gene, but the present sequence
           has not been shown to lack the activity. The PMI domain
           is C-terminal.
          Length = 468

 Score = 33.5 bits (77), Expect = 0.12
 Identities = 20/61 (32%), Positives = 29/61 (47%)

Query: 140 HRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHIND 199
           HR    EQLR +G+      LE +   +   IA+ A  +AR  G D ++L  A  + I D
Sbjct: 59  HRFIVAEQLREIGKLASNIILEPVGRNTAPAIALAALLAARRNGEDPLLLVLAADHVITD 118

Query: 200 S 200
            
Sbjct: 119 E 119


>gnl|CDD|162196 TIGR01085, murE, UDP-N-acetylmuramyl-tripeptide synthetase.  A
           close homolog, scoring just below the trusted cutoff, is
           found (with introns) in Arabidopsis thaliana. Its role
           is unknown.
          Length = 464

 Score = 32.3 bits (74), Expect = 0.25
 Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 3/62 (4%)

Query: 74  VIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQG-SGKTTTTAKIAYHLKTLKKKKI 132
           V  I+  +L   L   +       PS   + ++G+ G +GKTTTT+ IA  L+ L KK  
Sbjct: 58  VPVIIVPDLRHALSSLAAAF-YGHPSK-KLKVIGVTGTNGKTTTTSLIAQLLRLLGKKTG 115

Query: 133 LM 134
           L+
Sbjct: 116 LI 117


>gnl|CDD|163179 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD.  This
           model describes the DndB protein encoded by an operon
           associated with a sulfur-containing modification to DNA.
           The operon is sporadically distributed in bacteria, much
           like some restriction enzyme operons. DndD is described
           as a putative ATPase. The small number of examples known
           so far include species from among the Firmicutes,
           Actinomycetes, Proteobacteria, and Cyanobacteria.
          Length = 650

 Score = 31.2 bits (71), Expect = 0.58
 Identities = 12/30 (40%), Positives = 22/30 (73%), Gaps = 1/30 (3%)

Query: 87  GKESIELDLNAPSPLVIMLVGLQGSGKTTT 116
           G+++ +L  ++P P +I++ GL G+GKTT 
Sbjct: 16  GRQTFDLSPSSPKP-IILIGGLNGAGKTTL 44


>gnl|CDD|161782 TIGR00235, udk, uridine kinase.  Model contains a number of longer
           eukaryotic proteins and starts bringing in
           phosphoribulokinase hits at scores of 160 and below.
          Length = 207

 Score = 31.2 bits (71), Expect = 0.64
 Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 3/41 (7%)

Query: 98  PSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLD 138
           P  ++I + G  GSGKTT   KI    + L K +I++ S D
Sbjct: 4   PKGIIIGIGGGSGSGKTTVARKIY---EQLGKLEIVIISQD 41


>gnl|CDD|168091 PRK05541, PRK05541, adenylylsulfate kinase; Provisional.
          Length = 176

 Score = 30.4 bits (69), Expect = 0.96
 Identities = 16/35 (45%), Positives = 18/35 (51%), Gaps = 4/35 (11%)

Query: 98  PSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKI 132
           P+  VI + GL GSGKTT    IA  L    K K 
Sbjct: 5   PNGYVIWITGLAGSGKTT----IAKALYERLKLKY 35


>gnl|CDD|134018 PHA02518, PHA02518, ParA-like protein; Provisional.
          Length = 211

 Score = 29.8 bits (67), Expect = 1.3
 Identities = 26/86 (30%), Positives = 37/86 (43%), Gaps = 10/86 (11%)

Query: 110 GSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQ-EQLRYLGEQIQVDTLEVIPEQSP 168
           G+GKTT    +A  L      K+L+  LD    +    + R  GE        +IP    
Sbjct: 11  GAGKTTVATNLASWLH-ADGHKVLLVDLDPQGSSTDWAEAREEGE-------PLIPVVRM 62

Query: 169 EKIAIRATQSARDGGYDAVILDTAGR 194
            K +IRA       GYD V++D A +
Sbjct: 63  GK-SIRADLPKVASGYDYVVVDGAPQ 87


>gnl|CDD|184709 PRK14494, PRK14494, putative molybdopterin-guanine dinucleotide
           biosynthesis protein MobB/FeS domain-containing protein
           protein; Provisional.
          Length = 229

 Score = 29.9 bits (68), Expect = 1.4
 Identities = 11/24 (45%), Positives = 15/24 (62%)

Query: 102 VIMLVGLQGSGKTTTTAKIAYHLK 125
            I ++G + SGKTT   KI  +LK
Sbjct: 3   AIGVIGFKDSGKTTLIEKILKNLK 26


>gnl|CDD|129256 TIGR00152, TIGR00152, dephospho-CoA kinase.  This model produces
           scores in the range of 0-25 bits against adenylate,
           guanylate, uridine, and thymidylate kinases.
          Length = 188

 Score = 29.6 bits (67), Expect = 1.7
 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 2/56 (3%)

Query: 102 VIMLVGLQGSGKTTTTAKIA--YHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQI 155
           +I L G  GSGK+T    +A  YH   +   KI    ++   PA ++ + + G QI
Sbjct: 1   IIGLTGGIGSGKSTVANYLADKYHFPVIDADKIAHQVVEKGSPAYEKIVDHFGAQI 56


>gnl|CDD|106966 PHA00657, PHA00657, crystallin beta/gamma motif-containing protein.
          Length = 2052

 Score = 29.4 bits (65), Expect = 1.8
 Identities = 39/191 (20%), Positives = 79/191 (41%), Gaps = 12/191 (6%)

Query: 141 RPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGR--NHIN 198
           R  AQ+ ++   E+++ +    + EQ  +    ++ ++ R        LDTA R    +N
Sbjct: 505 RAEAQQYMQSQAEELRAEVERALGEQQGDDAFKQSAEAVRAAV--KTQLDTAARFTPQVN 562

Query: 199 DSLMQEISEIKSL------TNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTRMDG 252
           D+    +    ++      T P  +          ++V   + FD+     G +L    G
Sbjct: 563 DAYSSMVGNFYAVQAARLGTTPEALFQQYPLRVAAESVAGGQQFDQEHGPFGPVLRDFQG 622

Query: 253 DGRGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILGMGDVVSLVEKAARNLN 312
           D +G  A  +   +G+ I A+   + I D++  + +    R  G G +  L +     L+
Sbjct: 623 DAKGAIAKLLEMKSGEAIGALHHPD-IGDIDLVWGEEGTRRSDGYG-LAKLAKWHPEVLD 680

Query: 313 EKQAALTAKKI 323
           + Q  L+A K+
Sbjct: 681 DLQGILSAMKV 691


>gnl|CDD|132417 TIGR03374, ABALDH, 1-pyrroline dehydrogenase.  Members of this
           protein family are 1-pyrroline dehydrogenase (1.5.1.35),
           also called gamma-aminobutyraldehyde dehydrogenase. This
           enzyme can follow putrescine transaminase (EC 2.6.1.82)
           for a two-step conversion of putrescine to
           gamma-aminobutyric acid (GABA). The member from
           Escherichia coli is characterized as a homotetramer that
           binds one NADH per momomer. This enzyme belongs to the
           medium-chain aldehyde dehydrogenases, and is quite
           similar in sequence to the betaine aldehyde
           dehydrogenase (EC 1.2.1.8) family.
          Length = 472

 Score = 29.2 bits (65), Expect = 2.2
 Identities = 31/128 (24%), Positives = 48/128 (37%), Gaps = 16/128 (12%)

Query: 15  NITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQ-- 72
           ++TG  +  E  +S+T   I+RT +E      V+      +    +G +       GQ  
Sbjct: 220 SLTGSIATGEHILSHTAPSIKRTHMELGGKAPVIVFDDADIDAVVEGVRTFGFYNAGQDC 279

Query: 73  ------MVIKIVHDELVEVLGKESIELDLNAP-------SPLVIMLVGLQGSGKTTTTAK 119
                    + ++D LVE LG     L   AP        PL   L  L+   K    AK
Sbjct: 280 TAACRIYAQRGIYDTLVEKLGAAVATLKSGAPDDESTELGPL-SSLAHLERVMKAVEEAK 338

Query: 120 IAYHLKTL 127
              H+K +
Sbjct: 339 ALGHIKVI 346


>gnl|CDD|163066 TIGR02903, spore_lon_C, ATP-dependent protease, Lon family.
           Members of this protein family resemble the widely
           distributed ATP-dependent protease La, also called Lon
           and LonA. It resembles even more closely LonB, which is
           a LonA paralog found in genomes if and only if the
           species is capable of endospore formation (as in
           Bacillus subtilis, Clostridium tetani, and select other
           members of the Firmicutes) and expressed specifically in
           the forespore compartment. Members of this family are
           restricted to a subset of spore-forming species, and are
           very likely to participate in the program of endospore
           formation. We propose the designation LonC.
          Length = 615

 Score = 29.4 bits (66), Expect = 2.3
 Identities = 31/106 (29%), Positives = 51/106 (48%), Gaps = 13/106 (12%)

Query: 31  LREIRRTFLEADVSLEVVQSFSKRVQ-EKAKGEKILRSIQPGQMVIKIVHDELVEVLGKE 89
           L EIR   L+ +   E   +  K  + EK + +K+ +S Q       +      E++G+E
Sbjct: 106 LEEIRLQVLKEEKGPENSSTLKKLERLEKLEKKKLHKSAQS-----LLRPRAFSEIVGQE 160

Query: 90  ----SIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKK 131
               ++   + +P P  I+L G  G GK TT A++A  L+  KK K
Sbjct: 161 RAIKALLAKVASPFPQHIILYGPPGVGK-TTAARLA--LEEAKKLK 203


>gnl|CDD|163271 TIGR03453, partition_RepA, plasmid partitioning protein RepA.
           Members of this family are the RepA (or ParA) protein
           involved in replicon partitioning. All known examples
           occur in bacterial species with two or more replicons,
           on a plasmid or the smaller chromosome. Note that an
           apparent exception may be seen as a pseudomolecule from
           assembly of an incompletely sequenced genome. Members of
           this family belong to a larger family that also includes
           the enzyme cobyrinic acid a,c-diamide synthase, but
           assignment of that name to members of this family would
           be in error.
          Length = 387

 Score = 29.2 bits (66), Expect = 2.4
 Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 1/29 (3%)

Query: 110 GSGKTTTTAKIAYHLKTLKKKKILMASLD 138
           GSGKTTT A +A +L  L+  ++L   LD
Sbjct: 115 GSGKTTTAAHLAQYL-ALRGYRVLAIDLD 142


>gnl|CDD|183452 PRK12337, PRK12337, 2-phosphoglycerate kinase; Provisional.
          Length = 475

 Score = 29.0 bits (65), Expect = 2.4
 Identities = 10/28 (35%), Positives = 17/28 (60%)

Query: 97  APSPLVIMLVGLQGSGKTTTTAKIAYHL 124
            P PL +++ G+ G GK+   + +AY L
Sbjct: 252 PPRPLHVLIGGVSGVGKSVLASALAYRL 279


>gnl|CDD|183044 PRK11231, fecE, iron-dicitrate transporter ATP-binding subunit;
           Provisional.
          Length = 255

 Score = 29.2 bits (66), Expect = 2.6
 Identities = 20/92 (21%), Positives = 40/92 (43%), Gaps = 14/92 (15%)

Query: 87  GKESI--ELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAA 144
           G + I  +L L+ P+  +  L+G  G GK+T     A  L   +   + +    +   ++
Sbjct: 13  GTKRILNDLSLSLPTGKITALIGPNGCGKSTLLKCFARLLTP-QSGTVFLGDKPISMLSS 71

Query: 145 QEQLRYLGEQIQVDTLEVIPEQ--SPEKIAIR 174
           ++  R L          ++P+   +PE I +R
Sbjct: 72  RQLARRLA---------LLPQHHLTPEGITVR 94


>gnl|CDD|181567 PRK08861, PRK08861, cystathionine gamma-synthase; Provisional.
          Length = 388

 Score = 29.1 bits (65), Expect = 2.7
 Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 2/51 (3%)

Query: 126 TLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTL--EVIPEQSPEKIAIR 174
           TL+  + L A + VH  +AQ+ L YL  Q  V T+    +PE    +IA +
Sbjct: 242 TLRGIRTLGARMRVHEESAQQILAYLQTQSLVGTIYHPSLPEHPGHEIAKK 292


>gnl|CDD|178416 PLN02821, PLN02821, 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
           reductase.
          Length = 460

 Score = 29.0 bits (65), Expect = 2.8
 Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 6/43 (13%)

Query: 175 ATQSARDGGYDAV------ILDTAGRNHINDSLMQEISEIKSL 211
           ATQ  +D  Y  V      +L   G N  N S +QEI+E K +
Sbjct: 347 ATQERQDAMYKLVEEKLDLMLVVGGWNSSNTSHLQEIAEHKGI 389


>gnl|CDD|115374 pfam06712, DUF1199, Protein of unknown function (DUF1199).  This
          family consists of several hypothetical Feline
          immunodeficiency virus (FIV) proteins. Members of this
          family are typically around 67 residues long and are
          often annotated as ORF3 proteins. The function of this
          family is unknown.
          Length = 52

 Score = 28.7 bits (64), Expect = 3.0
 Identities = 14/32 (43%), Positives = 18/32 (56%)

Query: 8  RLGSIFQNITGKGSLSETDISNTLREIRRTFL 39
          R  +IF N  G GS+  + IS+  R IR  FL
Sbjct: 15 RSNNIFTNNQGSGSMETSTISSPSRRIRNNFL 46


>gnl|CDD|179771 PRK04182, PRK04182, cytidylate kinase; Provisional.
          Length = 180

 Score = 28.2 bits (64), Expect = 4.8
 Identities = 10/24 (41%), Positives = 14/24 (58%)

Query: 101 LVIMLVGLQGSGKTTTTAKIAYHL 124
           ++I + G  GSGKTT    +A  L
Sbjct: 1   MIITISGPPGSGKTTVARLLAEKL 24


>gnl|CDD|172963 PRK14490, PRK14490, putative bifunctional molybdopterin-guanine
           dinucleotide biosynthesis protein MobB/MobA;
           Provisional.
          Length = 369

 Score = 28.1 bits (63), Expect = 5.2
 Identities = 10/27 (37%), Positives = 11/27 (40%)

Query: 100 PLVIMLVGLQGSGKTTTTAKIAYHLKT 126
           P  I   G  GSGKTT    +   L  
Sbjct: 5   PFEIAFCGYSGSGKTTLITALVRRLSE 31


>gnl|CDD|164956 PHA02561, D, tail protein; Provisional.
          Length = 351

 Score = 28.1 bits (63), Expect = 5.4
 Identities = 26/127 (20%), Positives = 44/127 (34%), Gaps = 31/127 (24%)

Query: 161 EVIPEQSPEKIAIRAT--------QSARDGGYDAVILDT-----AGRNHINDSLMQEIS- 206
           EV    +P+ + IRA         +S R+  +    L       AGRN++   +   ++ 
Sbjct: 91  EVEHSGAPDTVTIRARSADFRGTLRSRREKSWHRTTLGDIVRAIAGRNNLTPRVAPALAG 150

Query: 207 -EIKSLTNPHEILLVADALTGQDAV---HLARNFD---KIVDLTGIILTRMDGDGRGGAA 259
             I  +    E           DA     LA+ +D   K+     +      G    G  
Sbjct: 151 IPIDHIDQTQE----------SDASFLTRLAKRYDAVAKVKGGKLLFAPAGQGKTASGKQ 200

Query: 260 LSMRTVT 266
           L + T+T
Sbjct: 201 LPVITLT 207


>gnl|CDD|163010 TIGR02773, addB_Gpos, ATP-dependent nuclease subunit B.  DNA repair
           is accomplished by several different systems in
           prokaryotes. Recombinational repair of double-stranded
           DNA breaks involves the RecBCD pathway in some lineages,
           and AddAB (also called RexAB) in other. The AddA protein
           is conserved between the firmicutes and the
           alphaproteobacteria, while the partner protein is not.
           Nevertheless, the partner is designated AddB in both
           systems. This model describes the AddB protein as found
           Bacillus subtilis and related species. Although the RexB
           protein of Streptococcus and Lactococcus is considered
           to be orthologous, functionally equivalent, and merely
           named differently, all members of this protein family
           have a P-loop nucleotide binding motif GxxGxGK[ST] at
           the N-terminus, unlike RexB proteins, and a CxxCxxxxxC
           motif at the C-terminus, both of which may be relevant
           to function.
          Length = 1158

 Score = 27.8 bits (62), Expect = 5.6
 Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 1/58 (1%)

Query: 38  FLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQMVIKIVHDELVEVLGKESIELDL 95
           FLE     + ++       E  + E+     Q    VI+++ DE+VEVLG E ++L+ 
Sbjct: 502 FLEELDLPDKLEKHRDYFDEDGRHEEAREYEQIWDAVIQLL-DEMVEVLGNEEMDLNR 558


>gnl|CDD|169652 PRK09087, PRK09087, hypothetical protein; Validated.
          Length = 226

 Score = 27.7 bits (62), Expect = 6.2
 Identities = 12/19 (63%), Positives = 14/19 (73%), Gaps = 1/19 (5%)

Query: 96  NAPSPLVIMLVGLQGSGKT 114
           N PSP+V+ L G  GSGKT
Sbjct: 41  NWPSPVVV-LAGPVGSGKT 58


>gnl|CDD|116198 pfam07579, DUF1548, Domain of Unknown Function (DUF1548).  This
           family appears to be found only in a small family of
           Chlamydia proteins.
          Length = 135

 Score = 27.7 bits (62), Expect = 6.2
 Identities = 17/94 (18%), Positives = 34/94 (36%), Gaps = 9/94 (9%)

Query: 308 ARNLNEKQAALTAKKIAKGKFDLEDLAEQFRQTQKIGG---IGSIL-RMLPGMPSLKQNI 363
            RNL+      T++   +     + L ++F    +  G   +  IL + L   P  K  +
Sbjct: 28  NRNLDALTLRQTSRLYPQKHELYDRLKKRFLNAYRNSGSNLVNYILDQFLTSSPEQKAAL 87

Query: 364 MPSSFDDKTI-----NHHIAIIASMTKEERANPS 392
                DD T        H  I++ +  ++    +
Sbjct: 88  RNYLLDDLTAINLPETEHADIVSELFYDDNYELN 121


>gnl|CDD|183905 PRK13233, nifH, nitrogenase reductase; Reviewed.
          Length = 275

 Score = 27.9 bits (62), Expect = 6.2
 Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 3/69 (4%)

Query: 103 IMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEV 162
           I + G  G GK+TTT   A  +     KK+ +   D   P A      LG + Q   ++ 
Sbjct: 5   IAIYGKGGIGKSTTTQNTAAAMAYFHDKKVFIHGCD---PKADSTRLILGGKPQTTMMDT 61

Query: 163 IPEQSPEKI 171
           + E   EK+
Sbjct: 62  LRELGEEKV 70


>gnl|CDD|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional.
          Length = 182

 Score = 27.9 bits (62), Expect = 6.3
 Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 15/61 (24%)

Query: 103 IMLVGLQGSGKT------------TTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRY 150
           I++VGL  +GKT            TT   I ++++T++ K +     DV     Q++LR 
Sbjct: 20  ILMVGLDAAGKTTILYKLKLGEVVTTIPTIGFNVETVEYKNLKFTMWDV---GGQDKLRP 76

Query: 151 L 151
           L
Sbjct: 77  L 77


>gnl|CDD|162176 TIGR01052, top6b, DNA topoisomerase VI, B subunit.  This model
           describes DNA topoisomerase VI, an archaeal type II DNA
           topoisomerase (DNA gyrase).
          Length = 488

 Score = 27.9 bits (62), Expect = 6.5
 Identities = 25/78 (32%), Positives = 37/78 (47%), Gaps = 5/78 (6%)

Query: 207 EIKSLTNPHEILLVADALTGQDAVHLARNFDKIV---DLTGIILTR-MDGDGRGGAALSM 262
           EI+ +   H  + V D   G    ++ + F K++       II +R   G G  GA L  
Sbjct: 56  EIEKIGKDHYKVTVEDNGPGIPEEYIPKVFGKMLAGSKFHRIIQSRGQQGIGISGAVLYS 115

Query: 263 RTVTGKPIKAI-GTGEKI 279
           +  TGKP+K I  TG +I
Sbjct: 116 QMTTGKPVKVISSTGGEI 133


>gnl|CDD|162351 TIGR01420, pilT_fam, pilus retraction protein PilT.  This model
           represents the PilT subfamily of proteins related to
           GspE, a protein involved in type II secretion (also
           called the General Secretion Pathway). PilT is an
           apparent cytosolic ATPase associated with type IV pilus
           systems. It is not required for pilin biogenesis, but is
           required for twitching motility and social gliding
           behaviors, shown in some species, powered by pilus
           retraction. Members of this family may be found in some
           species that type IV pili but have related structures
           for DNA uptake and natural transformation.
          Length = 343

 Score = 27.7 bits (62), Expect = 6.6
 Identities = 10/31 (32%), Positives = 17/31 (54%)

Query: 103 IMLVGLQGSGKTTTTAKIAYHLKTLKKKKIL 133
           I++ G  GSGK+TT A +  ++       I+
Sbjct: 125 ILVTGPTGSGKSTTLASMIDYINKNAAGHII 155


>gnl|CDD|178789 PRK00007, PRK00007, elongation factor G; Reviewed.
          Length = 693

 Score = 27.8 bits (63), Expect = 6.8
 Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 12/44 (27%)

Query: 112 GKTTTTAKIAYHLKTLKKKKILMASLDVHRPAA------QEQLR 149
           GKTTTT +I ++  T    KI     +VH  AA      QEQ R
Sbjct: 22  GKTTTTERILFY--TGVNHKI----GEVHDGAATMDWMEQEQER 59


>gnl|CDD|161676 TIGR00041, DTMP_kinase, thymidylate kinase.  Function:
           phosphorylation of DTMP to form DTDP in both de novo and
           salvage pathways of DTTP synthesis. Catalytic activity:
           ATP + thymidine 5'-phosphate = ADP + thymidine
           5'-diphosphate.
          Length = 195

 Score = 27.7 bits (62), Expect = 7.2
 Identities = 8/31 (25%), Positives = 15/31 (48%)

Query: 103 IMLVGLQGSGKTTTTAKIAYHLKTLKKKKIL 133
           I++ G+ G+GKTT    +   L+      + 
Sbjct: 6   IVIEGIDGAGKTTQANLLKKLLQENGYDVLF 36


>gnl|CDD|148176 pfam06414, Zeta_toxin, Zeta toxin.  This family consists of several
           bacterial zeta toxin proteins. Zeta toxin is thought to
           be part of a postregulational killing system in
           bacteria. It relies on antitoxin/toxin systems that
           secure stable inheritance of low and medium copy number
           plasmids during cell division and kill cells that have
           lost the plasmid.
          Length = 191

 Score = 27.6 bits (62), Expect = 7.6
 Identities = 7/22 (31%), Positives = 12/22 (54%)

Query: 99  SPLVIMLVGLQGSGKTTTTAKI 120
            P+ ++L G  G+GKT     +
Sbjct: 11  RPVAVLLGGQPGAGKTELARAL 32


>gnl|CDD|117696 pfam09140, MipZ, ATPase MipZ.  MipZ is an ATPase that forms a
           complex with the chromosome partitioning protein ParB
           near the chromosomal origin of replication. It is
           responsible for the temporal and spatial regulation of
           FtsZ ring formation.
          Length = 261

 Score = 27.3 bits (61), Expect = 7.9
 Identities = 24/108 (22%), Positives = 42/108 (38%), Gaps = 28/108 (25%)

Query: 110 GSGKTTTTAKIAYHLKT-LKKKKILMASLDV-HRPAAQEQL-RYLGEQ------------ 154
           GSGK+TT    A H+   L      +A++D+  R   Q  L RY+  +            
Sbjct: 11  GSGKSTT----AVHVAVALLYLGARVATIDLDLR---QRTLTRYIENRAATAERTGLDLP 63

Query: 155 ------IQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNH 196
                 +  D  EV   +S +   +    +  +   D +++DT G + 
Sbjct: 64  VPKHLCLPDDVSEVFDGESADDARLEEAVADLEQDADFIVIDTPGSDS 111


>gnl|CDD|182778 PRK10851, PRK10851, sulfate/thiosulfate transporter subunit;
           Provisional.
          Length = 353

 Score = 27.4 bits (61), Expect = 7.9
 Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 4/51 (7%)

Query: 73  MVIKIVHDELVEVLGKESI--ELDLNAPSPLVIMLVGLQGSGKTTTTAKIA 121
           M I+I    + +  G+  +  ++ L+ PS  ++ L+G  GSGKTT    IA
Sbjct: 1   MSIEI--ANIKKSFGRTQVLNDISLDIPSGQMVALLGPSGSGKTTLLRIIA 49


>gnl|CDD|151520 pfam11075, DUF2780, Protein of unknown function VcgC/VcgE
           (DUF2780).  This is a bacterial family of
           uncharacterized proteins.
          Length = 168

 Score = 27.3 bits (61), Expect = 8.3
 Identities = 16/86 (18%), Positives = 28/86 (32%), Gaps = 21/86 (24%)

Query: 303 LVEKAARNLNEKQAALTAKKIAKGKFD---LEDLAEQF--RQTQKIGGIGSILRM----- 352
            + K+    + +     A ++A        +  L  Q    Q Q  GG G++L +     
Sbjct: 19  DLAKSRAGSSSEALKGQAAQVAATTETSDLVGSLMSQLGVSQEQAAGGAGALLALAQNNL 78

Query: 353 -----------LPGMPSLKQNIMPSS 367
                      +PG+ SL       S
Sbjct: 79  SGDDFSELSKLIPGLDSLLGAAPLDS 104


>gnl|CDD|129833 TIGR00750, lao, LAO/AO transport system ATPase.  Mutations have
           also been found that do not phosphorylate the
           periplasmic binding proteins, yet still allow transport.
           The ATPase activity of this protein seems to be
           necessary, however.
          Length = 300

 Score = 27.4 bits (61), Expect = 8.3
 Identities = 40/200 (20%), Positives = 78/200 (39%), Gaps = 32/200 (16%)

Query: 82  LVEVLGKESIELDLNAPSP-----LVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMAS 136
           LVE    E+ +L L+   P       + + G  G+GK+T    +   L+  +  K+ + +
Sbjct: 12  LVENRHPEAKQL-LDRIMPYTGNAHRVGITGTPGAGKSTLLEALGMELRR-RGLKVAVIA 69

Query: 137 LDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIR-----ATQSARD-------GGY 184
           +D   P     +  LG++ ++  L   P      +  R      +Q+ R+        GY
Sbjct: 70  VDPSSPFTGGSI--LGDRTRMQRLATDPGAFIRSMPTRGHLGGLSQATRELILLLDAAGY 127

Query: 185 DAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVDLTG 244
           D +I++T G            SE+         ++V    TG D   +     +I D+  
Sbjct: 128 DVIIVETVGVGQ---------SEVDIANMADTFVVVTIPGTGDDLQGIKAGLMEIADI-- 176

Query: 245 IILTRMDGDGRGGAALSMRT 264
            ++ + DG+G     ++   
Sbjct: 177 YVVNKADGEGATNVTIARLM 196


>gnl|CDD|179291 PRK01390, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 460

 Score = 27.1 bits (61), Expect = 8.7
 Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 11/59 (18%)

Query: 74  VIKIVHDELVEVLGKESIEL-----DLNAPSPLVIMLVGLQGS-GKTTTTAKIAYHLKT 126
           V+ +     VEV+G   IEL       +AP    I    + G+ GK+TTTA IA+ L+ 
Sbjct: 85  VVDLARAAGVEVIG--DIELFCRERRAHAPDAPFI---AITGTNGKSTTTALIAHILRE 138


>gnl|CDD|181727 PRK09249, PRK09249, coproporphyrinogen III oxidase; Provisional.
          Length = 453

 Score = 27.4 bits (62), Expect = 8.8
 Identities = 26/101 (25%), Positives = 39/101 (38%), Gaps = 35/101 (34%)

Query: 22  LSETDISNTLREIRRTFL---EADVSLEV------------------------VQSFSKR 54
           LS   +   +  +R  F    +A++S+E+                        VQ F   
Sbjct: 116 LSPEQLRRLMALLREHFNFAPDAEISIEIDPRELDLEMLDALRELGFNRLSLGVQDFDPE 175

Query: 55  VQEKAKGEKILRSIQPGQMVIKIVHDELVEVLGKESIELDL 95
           VQ KA    + R IQP +    +V +   E LG  SI +DL
Sbjct: 176 VQ-KA----VNR-IQPFEFTFALV-EAARE-LGFTSINIDL 208


>gnl|CDD|131023 TIGR01968, minD_bact, septum site-determining protein MinD.  This
           model describes the bacterial and chloroplast form of
           MinD, a multifunctional cell division protein that
           guides correct placement of the septum. The homologous
           archaeal MinD proteins, with many archaeal genomes
           having two or more forms, are described by a separate
           model.
          Length = 261

 Score = 27.3 bits (61), Expect = 9.5
 Identities = 14/27 (51%), Positives = 16/27 (59%)

Query: 107 GLQGSGKTTTTAKIAYHLKTLKKKKIL 133
           G  G GKTTTTA +   L  L KK +L
Sbjct: 9   GKGGVGKTTTTANLGTALARLGKKVVL 35


>gnl|CDD|131024 TIGR01969, minD_arch, cell division ATPase MinD, archaeal.  This
           model represents the archaeal branch of the MinD family.
           MinD, a weak ATPase, works in bacteria with MinC as a
           generalized cell division inhibitor and, through
           interaction with MinE, prevents septum placement
           inappropriate sites. Often several members of this
           family are found in archaeal genomes, and the function
           is uncharacterized. More distantly related proteins
           include flagellar biosynthesis proteins and ParA
           chromosome partitioning proteins. The exact roles of the
           various archaeal MinD homologs are unknown.
          Length = 251

 Score = 27.0 bits (60), Expect = 9.8
 Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 6/42 (14%)

Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKK------KILMASL 137
           + +  G  G+GKTT TA +   L  L KK       I MA+L
Sbjct: 3   ITIASGKGGTGKTTITANLGVALAKLGKKVLALDADITMANL 44


>gnl|CDD|180114 PRK05480, PRK05480, uridine/cytidine kinase; Provisional.
          Length = 209

 Score = 27.0 bits (61), Expect = 9.8
 Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 3/40 (7%)

Query: 99  SPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLD 138
            P++I + G  GSGKTT  + I    + L  + I +   D
Sbjct: 5   KPIIIGIAGGSGSGKTTVASTIY---EELGDESIAVIPQD 41


>gnl|CDD|179010 PRK00411, cdc6, cell division control protein 6; Reviewed.
          Length = 394

 Score = 27.1 bits (61), Expect = 10.0
 Identities = 10/22 (45%), Positives = 15/22 (68%)

Query: 99  SPLVIMLVGLQGSGKTTTTAKI 120
            PL +++ G  G+GKTTT  K+
Sbjct: 54  RPLNVLIYGPPGTGKTTTVKKV 75


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.316    0.134    0.361 

Gapped
Lambda     K      H
   0.267   0.0728    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 7,470,920
Number of extensions: 499799
Number of successful extensions: 1564
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1527
Number of HSP's successfully gapped: 104
Length of query: 461
Length of database: 5,994,473
Length adjustment: 97
Effective length of query: 364
Effective length of database: 3,898,497
Effective search space: 1419052908
Effective search space used: 1419052908
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (26.5 bits)