RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781101|ref|YP_003065514.1|
UDP-N-acetylmuramoylalanyl-D-glutamyl-2,
6-diaminopimelate/D-alanyl-D-alanyl ligase [Candidatus Liberibacter
asiaticus str. psy62]
         (472 letters)



>gnl|CDD|184501 PRK14093, PRK14093,
           UDP-N-acetylmuramoylalanyl-D-glutamyl-2,
           6-diaminopimelate--D-alanyl-D-alanine ligase;
           Provisional.
          Length = 479

 Score =  436 bits (1122), Expect = e-123
 Identities = 203/468 (43%), Positives = 267/468 (57%), Gaps = 2/468 (0%)

Query: 3   PLWTFHDLLQAIQGHSIGIVPQGFVNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQ 62
           PLWT   + +A+     G +P+  V GISIDSR++AP +A+FAIKG  +DGH F+  A++
Sbjct: 5   PLWTSDAMAEAMGATRSGALPRD-VTGISIDSRTLAPGDAYFAIKGDVHDGHAFVAAALK 63

Query: 63  KGAGLVVVNTDMVASIGSLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTT 122
            GA L VV         +   P+  VDDVL AL  L  AAR R +A +IA+TGSVGKT+T
Sbjct: 64  AGAALAVVERAQRDKF-AADAPLLVVDDVLAALRDLGRAARARLEAKVIAVTGSVGKTST 122

Query: 123 KEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMSHLGEIRFLTHLV 182
           KE L   L +  +T+A + S+NNH GVPL+LAR P D  F +FE+GM+H GEI  L  +V
Sbjct: 123 KEALRGVLGAQGETHASVASFNNHWGVPLSLARCPADARFAVFEIGMNHAGEIEPLVKMV 182

Query: 183 RPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHAL 242
           RPH+A+ITT+ P HL  FSGIE IA AKAEIF GLE  G   LN D+  F+ L A + A 
Sbjct: 183 RPHVAIITTVEPVHLEFFSGIEAIADAKAEIFTGLEPGGAAVLNRDNPQFDRLAASARAA 242

Query: 243 GIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHGIGYHMAQNMLMTLGI 302
           GI  I SFG  + AD +L      ++ S +   + G  +       G H+A N L  L  
Sbjct: 243 GIARIVSFGADEKADARLLDVALHADCSAVHADILGHDVTYKLGMPGRHIAMNSLAVLAA 302

Query: 303 VSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVLSQ 362
             +  AD+  A  ALS   P  GRG R+   +  G  TLIDESYNANPASM AA+ VL +
Sbjct: 303 AELAGADLALAALALSQVQPAAGRGVRHTLEVGGGEATLIDESYNANPASMAAALGVLGR 362

Query: 363 ISPHGEGRRIAVLGDMCEMGELSQSFHIDLAEVLSLYNISHVWLSGFHVLALKDALPRSI 422
                +GRRIAVLGDM E+G      H  LAE +    I  V+  G  +  L DAL    
Sbjct: 363 APVGPQGRRIAVLGDMLELGPRGPELHRGLAEAIRANAIDLVFCCGPLMRNLWDALSSGK 422

Query: 423 HVHYSETMDGLFLFIQSSLVDGDVVVVKSSNSCGFYRLINLLLEEFPA 470
              Y+E    L   + +++  GDV++VK S       ++  L + FP 
Sbjct: 423 RGGYAEDAAALESQVVAAIRAGDVIMVKGSLGSRMKTIVTALEKRFPG 470


>gnl|CDD|162224 TIGR01143, murF,
           UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine
           ligase.  This family consists of the strictly bacterial
           MurF gene of peptidoglycan biosynthesis. This enzyme is
           almost always
           UDP-N-acetylmuramoylalanyl-D-glutamyl-2,
           6-diaminopimelate--D-alanyl-D-alanyl ligase, but in a
           few species, MurE adds lysine rather than
           diaminopimelate. This enzyme acts on the product from
           MurE activity, and so is also subfamily rather than
           equivalog. Staphylococcus aureus is an example of
           species in this MurF protein would differ.
          Length = 417

 Score =  353 bits (908), Expect = 5e-98
 Identities = 162/435 (37%), Positives = 227/435 (52%), Gaps = 20/435 (4%)

Query: 32  IDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGAGLVVVNTDMVASIGSLSIPVFGVDDV 91
            DSR+I P + F A+KG  +DGHDF+  A+  GA  V+V+ ++    G   +P   VDD 
Sbjct: 1   TDSRAIKPGDLFIALKGERFDGHDFVEQALAAGAVAVLVDREVGPDNG---LPQILVDDT 57

Query: 92  LGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPL 151
           L AL  LA A R +    +I ITGS GKTTTKEML   LS   K +A  G++NN IG+PL
Sbjct: 58  LEALQALASAKRAKFSGKVIGITGSSGKTTTKEMLAAILSHKYKVFATPGNFNNEIGLPL 117

Query: 152 TLARMPVDVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKA 211
           TL R P D D+ + E+G SH GEI +L  + +P IAVIT I PAHL  F  +E IA AK 
Sbjct: 118 TLLRAPGDHDYAVLEMGASHPGEIAYLAEIAKPDIAVITNIGPAHLEGFGSLEGIAEAKG 177

Query: 212 EIFEGLEKTGTIFLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSW 271
           EI +GL++ G   +N DD  F     +      K I SFG  +  DF        S    
Sbjct: 178 EILQGLKENGIAVINADDPAFAKFAKRLPN---KAILSFGF-EGGDFSAADISY-SALGS 232

Query: 272 MEVQLQ--GKSMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKR 329
               L   G   EV    +G H   N L    +   L   ++   + L+     +GR + 
Sbjct: 233 TGFTLVAPGGEFEVSLPLLGRHNVMNALAAAALALELGIPLEEIAEGLAELKLVKGRFE- 291

Query: 330 YRCALNQGFFTLIDESYNANPASMKAAISVLSQISPHGEGRRIAVLGDMCEMGELSQSFH 389
                 +   TLID++YNANP SM+AA+  L++      G++I VLGDM E+GE S+  H
Sbjct: 292 ---IQTKNGLTLIDDTYNANPDSMRAALDALARFP----GKKILVLGDMAELGEYSEELH 344

Query: 390 IDLAEVLSLYNISHVWLSGFHVLALKDALPRSIHVHYSETMDGLFLFIQSSLVDGDVVVV 449
            ++    +   I  V+L G     + D+L      H+++  D L  F++  L +GDVV+V
Sbjct: 345 AEVGRYANSLGIDLVFLVGEEAAVIYDSLGCKGF-HFAD-KDELLAFLKLELGEGDVVLV 402

Query: 450 KSSNSCGFYRLINLL 464
           K S S    +++  L
Sbjct: 403 KGSRSVKLEKVVEAL 417


>gnl|CDD|183385 PRK11929, PRK11929, putative bifunctional
           UDP-N-acetylmuramoylalanyl-D-glutamate--2,
           6-diaminopimelate
           ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-
           alanine ligase; Provisional.
          Length = 958

 Score =  292 bits (749), Expect = 1e-79
 Identities = 139/447 (31%), Positives = 209/447 (46%), Gaps = 22/447 (4%)

Query: 27  VNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGAGLVVVNTDMVASIGSLSIPVF 86
              +S DSRS+   E F A++G ++DGHD++  A   GA   VV       +  + +P  
Sbjct: 526 AGAVSTDSRSVGRGELFVALRGENFDGHDYLPQAFAAGACAAVVER----QVADVDLPQI 581

Query: 87  GVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTY---ACIGSY 143
            VDD   AL +LA A R R    ++AITGS GKTTTKEM+   L++ +      A  G++
Sbjct: 582 VVDDTRAALGRLATAWRARFSLPVVAITGSNGKTTTKEMIAAILAAWQGEDRVLATEGNF 641

Query: 144 NNHIGVPLTLARMPVDVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGI 203
           NN IGVPLTL R+       +FELGM+H GEI +L  +  P +A++T     H      +
Sbjct: 642 NNEIGVPLTLLRLRAQHRAAVFELGMNHPGEIAYLAAIAAPTVALVTNAQREHQEFMHSV 701

Query: 204 EEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKW 263
           E +A AK EI   L + G   +N DD +  +        G + +  FG    AD    K 
Sbjct: 702 EAVARAKGEIIAALPEDGVAVVNGDDPYTAIWAK---LAGARRVLRFGLQPGADVYAEKI 758

Query: 264 KQCSE-----QSWMEVQLQGKSMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALS 318
            +         +  +V     S EV    IG H  +N L  +       A +      L 
Sbjct: 759 AKDISVGEAGGTRCQVVTPAGSAEVYLPLIGEHNLRNALAAIACALAAGASLKQIRAGLE 818

Query: 319 VFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVLSQISPHGEGRRIAVLGDM 378
            F P  GR +R R +       +ID++YNANP SM+AAI VL+++     G R  VLGDM
Sbjct: 819 RFQPVAGRMQRRRLSCG---TRIIDDTYNANPDSMRAAIDVLAELP---NGPRALVLGDM 872

Query: 379 CEMGELSQSFHIDLAEVLSLYNISHVWLSGFHVLALKDALPRSIHVHYSETMDGLFLFIQ 438
            E+G+   + H ++ +      I  +   G        A           ++D +   ++
Sbjct: 873 LELGDNGPAMHREVGKYARQLGIDALITLGEAARDAAAAFGAGARGVC-ASVDEIIAALR 931

Query: 439 SSLVDGDVVVVKSSNSCGFYRLINLLL 465
            +L +GD V++K S      R+++ L 
Sbjct: 932 GALPEGDSVLIKGSRFMRLERVVDALS 958



 Score =  122 bits (309), Expect = 1e-28
 Identities = 98/391 (25%), Positives = 157/391 (40%), Gaps = 38/391 (9%)

Query: 10  LLQAIQGHSIGIVPQGFVNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGAGLVV 69
           LLQA+      +        + +DSR + P + F A +G   DG  FI  A+ +GA  V+
Sbjct: 15  LLQALAWLRGCVAA---TADLRLDSREVQPGDLFVACRGAASDGRAFIDQALARGAAAVL 71

Query: 70  VNTDMVASIGSLSIPVFGVDDVLGALNKLAVA--ARLRSKATIIAITGSVGKTTTKEMLT 127
           V  +    + +    V  V D+  AL +LA     R   + +++A+TG+ GKT+  ++L 
Sbjct: 72  VEAEGEDQVAAADALVLPVADLRKALGELAARWYGRPSEQLSLVAVTGTNGKTSCAQLLA 131

Query: 128 IALSSIKKTYACIGSYNNH-----IGVPLT----------LARMPVD-VDFGIFE----- 166
             L+ + K    IG+         I   LT          LARM     D    E     
Sbjct: 132 QLLTRLGKPCGSIGTLGARLDGRLIPGSLTTPDAIILHRILARMRAAGADAVAMEASSHG 191

Query: 167 LGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLN 226
           L    L  +R         +A  T +   HL     +++   AKA +F  L   G   +N
Sbjct: 192 LEQGRLDGLRI-------AVAGFTNLTRDHLDYHGTMQDYEEAKAALFSKLPGLGAAVIN 244

Query: 227 YDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHH 286
            DD     L A     G+K  YS   +  AD Q R  +  +      +     S ++V  
Sbjct: 245 ADDPAAARLLAA-LPRGLKVGYSPQNAG-ADVQARDLRATAHGQVFTLATPDGSYQLVTR 302

Query: 287 GIGYHMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKR-YRCALNQGFFTLIDES 345
            +G     N+L+    +  L   +    +AL+   P  GR +R    A  QG   ++D  
Sbjct: 303 LLGRFNVSNLLLVAAALKKLGLPLAQIARALAAVSPVPGRMERVGPTAGAQGPLVVVD-- 360

Query: 346 YNANPASMKAAISVLSQISPHGEGRRIAVLG 376
           Y   P ++  A++ L  ++    GR + V G
Sbjct: 361 YAHTPDALAKALTALRPVAQARNGRLVCVFG 391


>gnl|CDD|182718 PRK10773, murF, UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine
           ligase; Reviewed.
          Length = 453

 Score =  213 bits (544), Expect = 9e-56
 Identities = 127/416 (30%), Positives = 188/416 (45%), Gaps = 49/416 (11%)

Query: 6   TFHDLLQAIQGHSIGIVPQGFVNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGA 65
           T   L   + G   G      ++ ++ D+R + P   F A+KG  +D HDF   A   GA
Sbjct: 5   TLSQLADILNGELQGADIT--IDAVTTDTRKVTPGCLFVALKGERFDAHDFADDAKAAGA 62

Query: 66  GLVVVNTDMVASIGSLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEM 125
           G ++V+  +      + +P   V D   A  +LA   R +  A ++A+TGS GKT+ KEM
Sbjct: 63  GALLVSRPL-----DIDLPQLVVKDTRLAFGQLAAWVRQQVPARVVALTGSSGKTSVKEM 117

Query: 126 LTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMSHLGEIRFLTHLVRPH 185
               L     T    G+ NN IGVPLTL R+  + D+ + ELG +H GEI +   L RP 
Sbjct: 118 TAAILRQCGNTLYTAGNLNNDIGVPLTLLRLTPEHDYAVIELGANHQGEIAYTVSLTRPE 177

Query: 186 IAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHALGIK 245
            A++  +A AHL  F  +  +A AK EIF GL + G   +N D + +   +     +G K
Sbjct: 178 AALVNNLAAAHLEGFGSLAGVAKAKGEIFSGLPENGIAIMNADSNDWLNWQ---SVIGSK 234

Query: 246 TIYSF--GKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHG-----------IGYHM 292
           T++ F    + + DF           +   + +     E   H             G H 
Sbjct: 235 TVWRFSPNAANSVDF-----------TATNIHVTSHGTEFTLHTPTGSVDVLLPLPGRHN 283

Query: 293 AQNMLMTLGIVSILTADVD---TAIKA-LSVFHPKEGRGKRYRCALNQGFFTLIDESYNA 348
             N L      + L   V     A+KA L+      GR    + A  Q    L+D+SYNA
Sbjct: 284 IANALAA----AALAMSVGATLDAVKAGLANLKAVPGRLFPIQLAEGQ---LLLDDSYNA 336

Query: 349 NPASMKAAISVLSQISPHGEGRRIAVLGDMCEMGELSQSFHIDLAEVLSLYNISHV 404
           N  SM AA  VL+++     G R+ V+GDM E+G  S++ H  + E      I  V
Sbjct: 337 NVGSMTAAAQVLAEMP----GYRVMVVGDMAELGAESEACHRQVGEAAKAAGIDKV 388


>gnl|CDD|183386 PRK11930, PRK11930, putative bifunctional
           UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine
           ligase/alanine racemase; Provisional.
          Length = 822

 Score =  180 bits (459), Expect = 6e-46
 Identities = 110/467 (23%), Positives = 198/467 (42%), Gaps = 25/467 (5%)

Query: 6   TFHDLLQAIQGHSIGIVPQGFVNGISIDSRSI--APQEAFFAIKGPHYDGHDFILHAVQK 63
           T   +   +    +G      ++ I  DSRS+       FFA+KG   DGH +I    +K
Sbjct: 4   TLESISGILGAEGLGDKDA-IIDQILTDSRSLSFPENTLFFALKGERNDGHRYIQELYEK 62

Query: 64  GAGLVVVNTDMVASIGSLSIPVF-GVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTT 122
           G    VV+ +      S     F  V D L AL +LA   R +    +I ITGS GKT  
Sbjct: 63  GVRNFVVS-EEKHPEESYPDANFLKVKDPLKALQELAAYHRSQFDIPVIGITGSNGKTIV 121

Query: 123 KEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMSHLGEIRFLTHLV 182
           KE L   LS          SYN+ IGVPL++ ++  + + GIFE G+S  GE+  L  ++
Sbjct: 122 KEWLYQLLSPDYNIVRSPRSYNSQIGVPLSVWQLNEEHELGIFEAGISQPGEMEALQKII 181

Query: 183 RPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHAL 242
           +P I ++T I  AH  NF  I++    K ++F+  +       + +     +       L
Sbjct: 182 KPTIGILTNIGGAHQENFRSIKQKIMEKLKLFKDCDVIIYN-GDNELISSCI---TKSNL 237

Query: 243 GIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHGIGYHMAQNMLMTLGI 302
            +K I    K   A   +   ++  + + +    +G+        I     +N++  + +
Sbjct: 238 TLKLISWSRKDPEAPLYIPFVEKKEDHTVISYTYKGEDFHFEIPFIDDASIENLIHCIAV 297

Query: 303 VSILTADVDTAIKALSVFHPKEGR-----GKRYRCALNQGFFTLIDESYNANPASMKAAI 357
           +  L    D   + ++   P   R     G    C       TLI++SYN++  S+  A+
Sbjct: 298 LLYLGYSADQIQERMARLEPVAMRLEVKEGIN-NC-------TLINDSYNSDLQSLDIAL 349

Query: 358 SVLSQISPHGEGRRIAVLGDMCEMGELSQSFHIDLAEVLSLYNISHVWLSGFHVLALKDA 417
             L++ S     ++  +L D+ + G+  +  +  +A+++S   I  +   G  + +    
Sbjct: 350 DFLNRRSQS--KKKTLILSDILQSGQSPEELYRKVAQLISKRGIDRLIGIGEEISSEASK 407

Query: 418 LPRSIHVHYSETMDGLFLFIQSSLVDGDVVVVKSSNSCGFYRLINLL 464
              +    +  T   L  F      + ++++VK +    F ++  LL
Sbjct: 408 FEGTEKEFFKTTEAFLKSFAFLKFRN-ELILVKGARKFEFEQITELL 453


>gnl|CDD|149357 pfam08245, Mur_ligase_M, Mur ligase middle domain. 
          Length = 188

 Score =  149 bits (379), Expect = 1e-36
 Identities = 72/193 (37%), Positives = 93/193 (48%), Gaps = 7/193 (3%)

Query: 113 ITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMP-VDVDFGIFELGMSH 171
           ITG+ GKTTT E++   LS+        G+ NN IG+PL LA M     D+ + EL    
Sbjct: 1   ITGTNGKTTTTELIAALLSAAGGVVGTGGNTNNAIGLPLLLALMERKGADYAVLELSSFG 60

Query: 172 LGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSF 231
           LGE R L  L +P IAVIT I+P HL     +E  A+AKAEIFEGL + G   +N DD  
Sbjct: 61  LGEGR-LEGLAKPDIAVITNISPDHLDYHGTMENYAAAKAEIFEGLPEDGIAVINADD-- 117

Query: 232 FELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSW-MEVQLQGKSMEVVHHGIGY 290
              L  +    G K I +FG    AD +       SE    +   + G  +E+     G 
Sbjct: 118 -PELAKRLKNAGAKVI-TFGLENEADDRAANIYVSSEGGKIVLFTVPGGELEISLPLPGR 175

Query: 291 HMAQNMLMTLGIV 303
           H   N L  L   
Sbjct: 176 HNVYNALAALAAA 188


>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 =  105 bits (265), Expect = 2e-23
 Identities = 99/380 (26%), Positives = 153/380 (40%), Gaps = 48/380 (12%)

Query: 27  VNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGAGLVVVNTDMVASIGSLSIPVF 86
           V G+++DSR + P + F AIKG H DGHDFI  A+  GA  VVV  D         +PV 
Sbjct: 4   VTGLTLDSREVKPGDLFVAIKGTHVDGHDFIHDAIANGAVAVVVERD--VDFYVAPVPVI 61

Query: 87  GVDDVLGALNKLA--VAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYN 144
            V D+  AL+ LA         K  +I +TG+ GKTTT  ++   L  + K    IG+  
Sbjct: 62  IVPDLRHALSSLAAAFYGHPSKKLKVIGVTGTNGKTTTTSLIAQLLRLLGKKTGLIGTIG 121

Query: 145 NHIG------------------VPLTLARMPVD-VDFGIFELGMSH------LGEIRFLT 179
             +G                  +  TLA M      + + E+  SH      +  +RF  
Sbjct: 122 YRLGGNDLIKNPAALTTPEALTLQSTLAEMVEAGAQYAVMEVS-SHALAQGRVRGVRFD- 179

Query: 180 HLVRPHIAVITTIAPAHLSNFSG-IEEIASAKAEIFEGLEKTGTIFLNYDDSF-FELLKA 237
                  AV T ++  HL +F G +E   +AKA +F  L       +N DD +  + +K 
Sbjct: 180 ------AAVFTNLSRDHL-DFHGTMENYFAAKASLFTELGLKRFAVINLDDEYGAQFVKR 232

Query: 238 KSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHGIGYHMAQNML 297
               + +  I      +  D ++       E      +       +    IG     N+L
Sbjct: 233 LPKDITVSAITQPADGRAQDIKITDSGYSFEGQQFTFETPAGEGHLHTPLIGRFNVYNLL 292

Query: 298 MTLGIV-SILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAA 356
             L  +  +   D++  + AL  F    GR +       Q F  ++D  Y   P +++  
Sbjct: 293 AALATLLHLGGIDLEDIVAALEKFRGVPGRMELVD--GGQKFLVIVD--YAHTPDALE-- 346

Query: 357 ISVLSQISPHGEGRRIAVLG 376
              L  +  H +GR I V G
Sbjct: 347 -KALRTLRKHKDGRLIVVFG 365


>gnl|CDD|178894 PRK00139, murE,
           UDP-N-acetylmuramoylalanyl-D-glutamate--2,
           6-diaminopimelate ligase; Provisional.
          Length = 460

 Score =  105 bits (264), Expect = 3e-23
 Identities = 105/381 (27%), Positives = 154/381 (40%), Gaps = 70/381 (18%)

Query: 27  VNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGAGLVVVNTDMVASIGSLSIPVF 86
           + G++ DSR + P + F A+ G   DG DFI  A+  GA  VV   D  A  G   I V 
Sbjct: 15  ITGLTYDSRKVKPGDLFVALPGHKVDGRDFIAQAIANGAAAVVAEADGEAGTGVPVIIVP 74

Query: 87  GVDDVLGALNKLAVAARL----RSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGS 142
            +   L  L     AA        K  +I +TG+ GKTTT  +L   L  + +  A IG+
Sbjct: 75  DLRKALALL-----AAAFYGHPSDKLKLIGVTGTNGKTTTAYLLAQILRLLGEKTALIGT 129

Query: 143 YNNHIG---VP--LT----------LARMPVD--VDFGIFELGMSH------LGEIRFLT 179
             N IG   +P  LT          LA + VD  V +   E+  SH      +  ++F  
Sbjct: 130 LGNGIGGELIPSGLTTPDALDLQRLLAEL-VDAGVTYAAMEVS-SHALDQGRVDGLKF-- 185

Query: 180 HLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKS 239
                 +AV T ++  HL     +E+  +AKA +F  L     I  N DD     L A  
Sbjct: 186 -----DVAVFTNLSRDHLDYHGTMEDYLAAKARLFSELGLAAVI--NADDEVGRRLLALP 238

Query: 240 HALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHG----IGYHMAQN 295
            A  +           AD +            +E    G++  +V       IG     N
Sbjct: 239 DAYAVSM-------AGADLRATD---------VEYTDSGQTFTLVTEVESPLIGRFNVSN 282

Query: 296 MLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKA 355
           +L  L  +  L   ++ A+ AL+      GR +R      QG   ++D  Y   P +++ 
Sbjct: 283 LLAALAALLALGVPLEDALAALAKLQGVPGRMERVDAG--QGPLVIVD--YAHTPDALEK 338

Query: 356 AISVLSQISPHGEGRRIAVLG 376
              VL  + PH +GR I V G
Sbjct: 339 ---VLEALRPHAKGRLICVFG 356


>gnl|CDD|162197 TIGR01087, murD, UDP-N-acetylmuramoylalanine--D-glutamate ligase. 
          Length = 433

 Score = 90.5 bits (225), Expect = 9e-19
 Identities = 79/355 (22%), Positives = 131/355 (36%), Gaps = 45/355 (12%)

Query: 98  LAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSI-KKTYACIGSYNNHIGVP-LTLAR 155
           + +  RL     ++AITG+ GKTTT  +L   L +   K +        +IG P L +  
Sbjct: 93  IELFLRL-VPLPVVAITGTNGKTTTTSLLYHLLKAAGLKAFLG-----GNIGTPALEVLD 146

Query: 156 MPVDVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFE 215
                +  + EL    L      T  +RP IA+I  I+  HL      E+  +AK +IF 
Sbjct: 147 QE-GAELYVLELSSFQL----ETTESLRPEIALILNISEDHLDWHGSFEDYVAAKLKIFA 201

Query: 216 GLEKTGTIFLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQ 275
              +     LN DD  F  L  KS A     +  F   K+A+  L          +    
Sbjct: 202 RQTEGDVAVLNADDPRFARLAQKSKA----QVIWFSVEKDAERGL---CIRDGGLY---- 250

Query: 276 LQGKSMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRCALN 335
           L+   +E      G H A+N+L  + +   L  +++  ++AL  F     R +       
Sbjct: 251 LKPNDLEGSLL--GLHNAENILAAIALAKSLGLNLEAILEALRSFKGLPHRLEYVGQKNG 308

Query: 336 QGFFTLIDESYNANPASMKAAISVLSQISPHGEGRRIAVL-GDMCEMGELSQSFHIDLAE 394
             F    ++S   N  +  AA+S             + ++ G   +  + S      LA 
Sbjct: 309 VHF---YNDSKATNVHATLAALSAF--------DNPVILIVGGDDKGADFS-----PLAP 352

Query: 395 VLSLYNISHVWLSGFHVLALKDALPRSIHVHY-SETMDGLFLFIQSSLVDGDVVV 448
             +      V   G     +   L  +    Y  E+++      +     GDVV+
Sbjct: 353 AAAGKVK-AVLAIGEDAAKIAPLLKEAGLSVYLVESLEEAVQAAREVASPGDVVL 406


>gnl|CDD|162195 TIGR01082, murC, UDP-N-acetylmuramate--alanine ligase.
           UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-
           diaminopimelate ligase (murein tripeptide ligase) is
           described by TIGR01081.
          Length = 448

 Score = 86.6 bits (215), Expect = 1e-17
 Identities = 81/385 (21%), Positives = 145/385 (37%), Gaps = 53/385 (13%)

Query: 83  IPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKK-TYACIG 141
           IPV    ++L  L +             IA+ G+ GKTTT  M+ + L          +G
Sbjct: 83  IPVIRRAEMLAELMR---------FRHSIAVAGTHGKTTTTAMIAVILKEAGLDPTVVVG 133

Query: 142 SY------NNHIGVPLTLARMPVDVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPA 195
                   N  +G            ++ + E   S         HL +P++A++T I P 
Sbjct: 134 GLVKEAGTNARLGSG----------EYLVAEADESD----ASFLHL-QPNVAIVTNIEPD 178

Query: 196 HLSNF-SGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHALGIKTIYSFGKSK 254
           HL  + S  E + +A  +    L   G   +  DD     L  K+     + I   G  +
Sbjct: 179 HLDTYGSSFERLKAAFEKFIHNLPFYGLAVICADDPVLRELVPKAT---EQVITYGGSGE 235

Query: 255 NADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHGI-GYHMAQNMLMTLGIVSILTADVDTA 313
           +AD++    +Q   +    V+ +GK        + G H   N L  + +   L  D +  
Sbjct: 236 DADYRAENIQQSGAEGKFSVRGKGKLYLEFTLNLPGRHNVLNALAAIAVALELGIDFEAI 295

Query: 314 IKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVLSQISPHGEGRRIA 373
           ++AL+ F    G  +R+      G   LID+ Y  +P  +KA +    Q  P    +RI 
Sbjct: 296 LRALANFQ---GVKRRFEILGEFGGVLLIDD-YAHHPTEIKATLKAARQGYPD---KRIV 348

Query: 374 VL-------GDMCEMGELSQSFH-IDLAEVLSLYNISHVWLSGFHVLALKDAL--PRSIH 423
           V+              + ++     D   +L +Y      ++G    +L   +     I 
Sbjct: 349 VVFQPHRYSRTRDLFDDFAKVLSDADELILLDIYAAGEEPINGIDGKSLARKITQLGKIE 408

Query: 424 VHYSETMDGLFLFIQSSLVDGDVVV 448
            ++   +  L  F+ + L  GD+++
Sbjct: 409 PYFVPDLAELVEFLAAVLQSGDLIL 433


>gnl|CDD|179018 PRK00421, murC, UDP-N-acetylmuramate--L-alanine ligase;
           Provisional.
          Length = 461

 Score = 81.3 bits (202), Expect = 4e-16
 Identities = 101/419 (24%), Positives = 161/419 (38%), Gaps = 78/419 (18%)

Query: 63  KGAGLVVV-------NTDMVASIGSLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITG 115
           K A +VV        N ++VA+   L IPV    ++L  L        +R + T IA+ G
Sbjct: 65  KDADVVVYSSAIPDDNPELVAAR-ELGIPVVRRAEMLAEL--------MRFR-TSIAVAG 114

Query: 116 SVGKTTTKEMLTIALSSIKK--TYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMS--H 171
           + GKTTT  +L   L+      T+  IG   N  G   T AR+  + D+ + E   S   
Sbjct: 115 THGKTTTTSLLAHVLAEAGLDPTFL-IGGILNAAG---TNARLG-NSDYFVAEADESDRS 169

Query: 172 LGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSF 231
                FL  L  P IA++T I   HL  +   E++  A  E    L   G +    DD  
Sbjct: 170 -----FL-KL-HPDIAIVTNIDADHLDYYGDFEDLKDAFQEFAHNLPFYGALVACGDDPE 222

Query: 232 FELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVH-HGIGY 290
              L  +      + + ++G S++ADF+    +Q    +  +V  +G+ +        G 
Sbjct: 223 LRELLPRVS----RPVITYGFSEDADFRAENIRQDGGGTHFDVLRRGEVLGDFTLPLPGR 278

Query: 291 HMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANP 350
           H   N L  + +   L  D +   +AL+ F   +G  +R+      G   LID+ Y  +P
Sbjct: 279 HNVLNALAAIAVALELGIDDEAIREALATF---KGVKRRFEEKGEVGGVVLIDD-YAHHP 334

Query: 351 ASMKAAISVLSQISPHGEGRRIAVLGDMCEMGELSQSF--H-----IDLAE--VLSLYNI 401
             +KA +    Q  P    R +AV             F  H      DL +    +L + 
Sbjct: 335 TEIKATLKAARQGYPD--KRIVAV-------------FQPHRYSRTRDLLDEFAEALSDA 379

Query: 402 SHVWLS-----------GFHVLALKDALPRS-IHVHYSETMDGLFLFIQSSLVDGDVVV 448
             V L            G     L   + R      +   ++ L   +   L  GD+V+
Sbjct: 380 DEVILLDIYAAGEEPIGGVDSEDLARKIKRGHRDPIFVPDLEDLAELLAEVLKPGDLVL 438


>gnl|CDD|184511 PRK14106, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 450

 Score = 66.5 bits (163), Expect = 1e-11
 Identities = 59/189 (31%), Positives = 80/189 (42%), Gaps = 33/189 (17%)

Query: 63  KGAGLVVVN------TDMVASIGSLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGS 116
           +G  LVVV+      +  V       I V G         ++ +A R  SKA I+AITG+
Sbjct: 67  EGVDLVVVSPGVPLDSPPVVQAHKKGIEVIG---------EVELAYRF-SKAPIVAITGT 116

Query: 117 VGKTTTKEML-TIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMS--HLG 173
            GKTTT  +L  I  ++ +KT         +IG PL  A      D  I    +S   L 
Sbjct: 117 NGKTTTTTLLGEIFKNAGRKTLVA-----GNIGYPLIDAVEEYGED-DIIVAEVSSFQLE 170

Query: 174 EIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDD---- 229
            I+      +P +  I  I P HL     +E    AKA IFE    +    LNYDD    
Sbjct: 171 TIKEF----KPKVGCILNITPDHLDRHKTMENYIKAKARIFENQRPSDYTVLNYDDPRTR 226

Query: 230 SFFELLKAK 238
           S  +  KA+
Sbjct: 227 SLAKKAKAR 235


>gnl|CDD|179428 PRK02472, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 447

 Score = 61.4 bits (150), Expect = 5e-10
 Identities = 55/219 (25%), Positives = 85/219 (38%), Gaps = 24/219 (10%)

Query: 106 SKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPLT-LARMPVDVDFGI 164
           S+A II ITGS GKTTT  ++   L +  +          +IG P + +A+     D  +
Sbjct: 106 SEAPIIGITGSNGKTTTTTLIGEMLKAGGQH----ALLAGNIGYPASEVAQKATADDTLV 161

Query: 165 FELGMSHL-GEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTI 223
            EL    L G         RPHIAVIT I PAHL      E   +AK  I +   +   +
Sbjct: 162 MELSSFQLMG-----IETFRPHIAVITNIYPAHLDYHGTFENYVAAKWNIQKNQTEDDYL 216

Query: 224 FLNYDDSFFELLKAKSHALGIKTIY-SFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSME 282
            +N+D    E +K  +       +  S  +       +       +   +  +   K M 
Sbjct: 217 VINFDQ---EEVKELAKQTKATVVPFSTTEKVEDGAYI-------KDGALYFK-GEKIMA 265

Query: 283 VVHHGI-GYHMAQNMLMTLGIVSILTADVDTAIKALSVF 320
                + G H  +N L  +    +L    +   + LS F
Sbjct: 266 ADDIVLPGSHNLENALAAIAAAKLLGVSNEAIREVLSTF 304


>gnl|CDD|179297 PRK01438, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 480

 Score = 60.1 bits (146), Expect = 1e-09
 Identities = 56/176 (31%), Positives = 77/176 (43%), Gaps = 29/176 (16%)

Query: 64  GAGLVVV------NTDMVASIGSLSIPVFGVDDVLGALNKLAVAARLRSK---ATIIAIT 114
              LVV       +  ++A+     IPV+G  +V        +A RLR     A  +A+T
Sbjct: 78  DTDLVVTSPGWRPDAPLLAAAADAGIPVWG--EV-------ELAWRLRDPDRPAPWLAVT 128

Query: 115 GSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPLTLA-RMPVDVDFGIFELGMSHLG 173
           G+ GKTTT +ML   L +     A +G+    IG P+  A R P   D    EL    L 
Sbjct: 129 GTNGKTTTVQMLASMLRAAGLRAAAVGN----IGTPVLDAVRDPEGYDVLAVELSSFQL- 183

Query: 174 EIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDD 229
                +  V PH A +  +AP HL     +E  A+AKA I+EG   T     N  D
Sbjct: 184 ---HWSPSVSPHSAAVLNLAPDHLDWHGSMEAYAAAKARIYEG--TTVACVYNVAD 234


>gnl|CDD|184459 PRK14022, PRK14022,
           UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase;
           Provisional.
          Length = 481

 Score = 55.4 bits (134), Expect = 3e-08
 Identities = 34/127 (26%), Positives = 51/127 (40%), Gaps = 9/127 (7%)

Query: 14  IQGHSIGIVPQGFVNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGAGLVVVNTD 73
            Q H          + IS DSR+      FFA     Y  H F+ +A+ +G  L V   D
Sbjct: 21  DQDHYHYNYSGVQFDDISYDSRTADEGTLFFAKGA--YFKHKFLQNAITQGLKLYVSEKD 78

Query: 74  MVASIGSLSIPVFGVDDVLGALNKLAVA--ARLRSKATIIAITGSVGKTTTKEMLTIALS 131
                  + IP   V D+  A++ +A+      + K  ++A TG+ GKTT        L 
Sbjct: 79  Y-----EVGIPQVIVPDIKKAMSLIAMEFYDNPQHKLKLLAFTGTKGKTTAAYFAYHILK 133

Query: 132 SIKKTYA 138
            + K   
Sbjct: 134 QLHKPAM 140


>gnl|CDD|179323 PRK01710, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 458

 Score = 54.7 bits (132), Expect = 5e-08
 Identities = 39/128 (30%), Positives = 59/128 (46%), Gaps = 18/128 (14%)

Query: 107 KATIIAITGSVGKTTTKEMLTIALSSIKKT--YAC-IGSYNNHIGVPL--TLARMPVDVD 161
            A +  +TGS GKTTT    T  +  + K   Y   +G    +IG PL   +  +  + D
Sbjct: 116 PAKVFGVTGSDGKTTT----TTLIYEMLKEEGYKTWVGG---NIGTPLFSNIEEIKEE-D 167

Query: 162 FGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTG 221
             + EL    L     +T  V P +AV+T ++P HL     +EE   AK  IF+   +  
Sbjct: 168 KVVLELSSFQL-----MTMDVSPEVAVVTNLSPNHLDVHKDMEEYIDAKKNIFKYQSEND 222

Query: 222 TIFLNYDD 229
            + LN D+
Sbjct: 223 LLVLNKDN 230


>gnl|CDD|184752 PRK14573, PRK14573, bifunctional D-alanyl-alanine synthetase
           A/UDP-N-acetylmuramate--L-alanine ligase; Provisional.
          Length = 809

 Score = 53.7 bits (129), Expect = 9e-08
 Identities = 56/223 (25%), Positives = 87/223 (39%), Gaps = 24/223 (10%)

Query: 102 ARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKT--YACIGSYNNHIGVPLTLARMPVD 159
           A L  +   I ++GS GKTT   ++T      KK   YA IG  N        L      
Sbjct: 98  AELMQEQISILVSGSHGKTTVSSLITAIFQEAKKDPSYA-IGGLNQ-----EGLNGYSGS 151

Query: 160 VDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSG-IEEIASAKAEIFEGLE 218
            ++ + E   S  G ++  T    P  +VIT I   HLSNF G  E + ++  +    ++
Sbjct: 152 SEYFVAEADESD-GSLKHYT----PEFSVITNIDNEHLSNFEGDRELLLASIQDFARKVQ 206

Query: 219 KTGTIFLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQG 278
           +    F N D       + K    G     S+G S + D  +  + Q   +S+   +  G
Sbjct: 207 QINKCFYNGDCP-----RLKGCLQGH----SYGFSSSCDLHILSYYQEGWRSYFSAKFLG 257

Query: 279 KSMEVVH-HGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVF 320
              + +  + +G H   N    +GI   L  D      AL  F
Sbjct: 258 VVYQDIELNLVGMHNVANAAAAMGIALTLGIDEGAIRNALKGF 300


>gnl|CDD|167786 PRK04308, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 445

 Score = 51.4 bits (123), Expect = 5e-07
 Identities = 75/305 (24%), Positives = 115/305 (37%), Gaps = 45/305 (14%)

Query: 90  DVLGALNKLAVA-ARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACI-----GSY 143
            VLG +  LA    R   K  +IAITGS GKTT   ++          Y CI        
Sbjct: 93  RVLGDIELLADIVNRRGDK--VIAITGSNGKTTVTSLVG---------YLCIKCGLDTVI 141

Query: 144 NNHIGVPL---TLARMPVDVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNF 200
             +IG P+    L R     D  + EL    L      T  +RP  A +  I+  HL  +
Sbjct: 142 AGNIGTPVLEAELQREGKKADVWVLELSSFQLEN----TESLRPTAATVLNISEDHLDRY 197

Query: 201 SGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQL 260
             + + A  KA+IF G    G   LN DD+F   +K          +  F     ADF L
Sbjct: 198 DDLLDYAHTKAKIFRG---DGVQVLNADDAFCRAMKRAGR-----EVKWFSLEHEADFWL 249

Query: 261 RKWKQCSEQSWMEVQLQGKSMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVF 320
            +     +Q   E  +  + + +     G H A N++  + +   +    +  ++ +  F
Sbjct: 250 ERETGRLKQG-NEDLIATQDIPLQ----GLHNAANVMAAVALCEAVGLPREALLEHVKTF 304

Query: 321 HPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVLSQ-----ISPHGEGRRIAVL 375
              +G   R      +     ID+S   N  +  AAI+ L       +   G+G+    L
Sbjct: 305 ---QGLPHRVEKIGEKNGVVFIDDSKGTNVGATAAAIAGLQNPLFVILGGMGKGQDFTPL 361

Query: 376 GDMCE 380
            D   
Sbjct: 362 RDALA 366


>gnl|CDD|179359 PRK02006, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 498

 Score = 48.9 bits (117), Expect = 3e-06
 Identities = 56/207 (27%), Positives = 80/207 (38%), Gaps = 31/207 (14%)

Query: 35  RSIAPQEAFFAIKGPH----YDGHDFILHAVQKGAGLVVVNT-DMVASIGSLSIPVFGVD 89
           R+  P   F    GP      DG D +  A+  G   +      +VA+     IPV+G  
Sbjct: 49  RAELPDAEFVG--GPFDPALLDGVDLV--ALSPGLSPLEAALAPLVAAARERGIPVWGEI 104

Query: 90  DVLG-ALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIG 148
           ++   AL  L  +        ++AITG+ GKTTT  +  +      K  A  G+    I 
Sbjct: 105 ELFAQALAALGASGY---APKVLAITGTNGKTTTTALTGLLCERAGKKVAVAGN----IS 157

Query: 149 VPLTLARMPVDVDFG------IFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSG 202
            P  L ++   +D G      + EL    L      TH + P  A +  I   HL     
Sbjct: 158 -PAALDKLMEAIDAGALPDVWVLELSSFQLET----THTLAPDAATVLNITQDHLDWHGS 212

Query: 203 IEEIASAKAEIFEGLEKTGTIFLNYDD 229
           +   A+AKA IF          LN DD
Sbjct: 213 MAAYAAAKARIFGP---RTVRVLNRDD 236


>gnl|CDD|179286 PRK01368, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 454

 Score = 48.3 bits (115), Expect = 4e-06
 Identities = 37/121 (30%), Positives = 60/121 (49%), Gaps = 10/121 (8%)

Query: 111 IAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMS 170
           IAITG+ GK+TT  +++  L+S    Y   G+    IGVP   A+     D  + EL   
Sbjct: 107 IAITGTNGKSTTTALISHILNSNGLDYPVAGN----IGVPALQAK--ASKDGYVLELSSF 160

Query: 171 HLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDS 230
            L  ++  T      IAV+  I P HL     ++   +AK++IF+ ++K     +N D+ 
Sbjct: 161 QLDLVKTFT----AKIAVLLNITPDHLDRHQDMDGYIAAKSKIFDRMDKDSYAVINIDND 216

Query: 231 F 231
           +
Sbjct: 217 Y 217


>gnl|CDD|179650 PRK03803, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 448

 Score = 47.6 bits (114), Expect = 7e-06
 Identities = 68/287 (23%), Positives = 106/287 (36%), Gaps = 58/287 (20%)

Query: 107 KATIIAITGSVGKTTTK----EMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDF 162
           KA +IAITGS GK+T      EM   A     K  A  G+    IG P  L  +  D + 
Sbjct: 107 KAPVIAITGSNGKSTVTTLVGEMAKAA----GKRVAVGGN----IGTP-ALDLLSDDPEL 157

Query: 163 GIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGT 222
            + EL    L      TH +   +A +  I+  H+  +S +E    AK  I+ G      
Sbjct: 158 YVLELSSFQLE----TTHSLNAEVATVLNISEDHMDRYSDLEAYHQAKHRIYRG---AKQ 210

Query: 223 IFLNYDDSFFELLKAKSHALGIKTIYSFGKSK--NADFQLR-----KWKQCSEQSWM--- 272
           +  N DD+    L   +     +   SFG +     ++ LR      +     +  M   
Sbjct: 211 VVFNRDDALTRPLVPDN-----QPCLSFGLNAPDFDEWGLREGDGETYLAHGFERLMPVR 265

Query: 273 EVQLQGKSMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRC 332
           E++L+G            H   N L  L +        +  ++ L  F      G  +RC
Sbjct: 266 ELKLRGS-----------HNLANALAALALGEAAGLPKEAMLEVLRTF-----TGLPHRC 309

Query: 333 ---ALNQGFFTLIDESYNANPASMKAAISVLSQISPHGEGRRIAVLG 376
                  G     ++S   N  +  AAI  L     H +G+ + + G
Sbjct: 310 EWVREVAG-VDYYNDSKGTNVGATVAAIEGLGA---HIQGKLVLIAG 352


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

 Score = 44.1 bits (105), Expect = 8e-05
 Identities = 35/134 (26%), Positives = 55/134 (41%), Gaps = 17/134 (12%)

Query: 102 ARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVP-LTLARMPVDV 160
                 A  IAITG+ GK+TT  ++   L    +     G+    IG   LTL   P   
Sbjct: 108 RAHAPDAPFIAITGTNGKSTTTALIAHILREAGRDVQMGGN----IGTAVLTLEPPPAG- 162

Query: 161 DFGIFELGMSHLGEIRF---LTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGL 217
              ++ L +S      +   L   + P + V+  + P HL     +E  A+AK  +F G 
Sbjct: 163 --RVYVLELS-----SYQIDLAPSLDPDVGVLLNLTPDHLDRHGTMEGYAAAKERLFAGQ 215

Query: 218 EKTGTIFLNYDDSF 231
               T  +  DD++
Sbjct: 216 GP-DTAVIGVDDAY 228


>gnl|CDD|179871 PRK04663, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 438

 Score = 43.6 bits (103), Expect = 1e-04
 Identities = 70/265 (26%), Positives = 106/265 (40%), Gaps = 47/265 (17%)

Query: 108 ATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFEL 167
             +IAITGS GK+T  + LT  ++        +G    +IGVP  L  +  D +  + EL
Sbjct: 108 KPVIAITGSNGKSTVTD-LTGVMAKAAGVKVAVGG---NIGVP-ALDLLEQDAELYVLEL 162

Query: 168 GMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNY 227
               L E      L     A    ++  H+  + G+E+   AK  IF+  E      +N 
Sbjct: 163 SSFQL-ETTSSLKLK---AAAFLNLSEDHMDRYQGMEDYRQAKLRIFDHAE---LAVVNR 215

Query: 228 DDSFFELLKAKSHALGIKTIYSFGKSKNADFQL-----RKWKQCSEQSWM---EVQLQGK 279
           DD      K          + +FG     DF L     R+W   + Q  +   E++L G+
Sbjct: 216 DD------KQTYPDHAELQLVTFG-FDQQDFGLAQHQGREWLADNGQPVLASAELKLVGR 268

Query: 280 SMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRC---ALNQ 336
                      H   N+L+ L ++     D   A+ AL     K   G  +RC   A N 
Sbjct: 269 -----------HNVANVLVVLALLDAAGVDYRKALDAL-----KSYTGLTHRCQVVADNH 312

Query: 337 GFFTLIDESYNANPASMKAAISVLS 361
           G    +++S   N AS  AA+S L 
Sbjct: 313 G-IKWVNDSKATNVASTLAALSGLE 336


>gnl|CDD|179651 PRK03806, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 438

 Score = 42.6 bits (101), Expect = 2e-04
 Identities = 64/261 (24%), Positives = 114/261 (43%), Gaps = 37/261 (14%)

Query: 107 KATIIAITGSVGKTTTKEMLT-IALSSIKKTYACIGSYNNHIGVP-LTLARMPVDVDFGI 164
           +A I+AITGS GK+T   ++  +A    K     +G   N IG+P L+L     ++   +
Sbjct: 104 QAPIVAITGSNGKSTVTTLVGEMA----KAAGWKVGVGGN-IGLPALSLLDQECEL--YV 156

Query: 165 FELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNF-SGIEEIASAKAEIFEGLEKTGTI 223
            EL    L      T  ++   A I  +   H+  +  G+++  +AK  I+E  +     
Sbjct: 157 LELSSFQLET----TSSLKAAAATILNVTEDHMDRYPFGLQQYRAAKLRIYENAK---VC 209

Query: 224 FLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQ----LQGK 279
            +N DD+    L         + + SFG +   D+ L + +    ++W+ V+    L  K
Sbjct: 210 VVNADDA----LTMPIRGADKRCV-SFGVN-MGDYHLNRQQ---GETWLRVKGEKVLNTK 260

Query: 280 SMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFF 339
            M++     G H   N L  L +   +     +++KAL+ F    G   R++  L     
Sbjct: 261 EMKLS----GQHNYTNALAALALADAVGIPRASSLKALTTFT---GLPHRFQLVLEHNGV 313

Query: 340 TLIDESYNANPASMKAAISVL 360
             I++S   N  S +AA++ L
Sbjct: 314 RWINDSKATNVGSTEAALNGL 334


>gnl|CDD|179652 PRK03815, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 401

 Score = 40.0 bits (94), Expect = 0.001
 Identities = 31/102 (30%), Positives = 43/102 (42%), Gaps = 12/102 (11%)

Query: 109 TIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELG 168
             I I+G+ GKTTT +M T  L       A  G    +IG P  LA +  +    + E  
Sbjct: 90  FSIWISGTNGKTTTTQMTTHLLEDFG---AVSGG---NIGTP--LAELDKNAKIWVLETS 141

Query: 169 MSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAK 210
              L      T+  +P+I ++  I P HLS     E    AK
Sbjct: 142 SFTL----HYTNKAKPNIYLLLPITPDHLSWHGSFENYVKAK 179


>gnl|CDD|179872 PRK04690, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 468

 Score = 39.0 bits (91), Expect = 0.003
 Identities = 31/99 (31%), Positives = 46/99 (46%), Gaps = 9/99 (9%)

Query: 101 AARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPL--TLARMPV 158
           AAR       + +TG+ GK+TT  +L   L +     A +G+    IGVPL   LA  P 
Sbjct: 108 AARDGVVPGTVCVTGTKGKSTTTALLAHLLRAAGHRTALVGN----IGVPLLEVLAPQPA 163

Query: 159 DVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHL 197
             ++   EL     G++       RP +AV+  + P HL
Sbjct: 164 -PEYWAIELSSYQTGDVA--RSGARPELAVVLNLFPEHL 199


>gnl|CDD|162681 TIGR02068, cya_phycin_syn, cyanophycin synthetase.  Cyanophycin
           synthesis is analogous to polyhydroxyalkanoic acid (PHA)
           biosynthesis, except that PHA polymers lack nitrogen and
           may be made under nitrogen-limiting conditions.
          Length = 864

 Score = 37.8 bits (88), Expect = 0.006
 Identities = 71/341 (20%), Positives = 114/341 (33%), Gaps = 54/341 (15%)

Query: 84  PVFGVD-DVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGS 142
           P  G   +V  A+  +   A    +  I+++TG+ GKTTT  +    ++ I K    +  
Sbjct: 454 PSQGKPRNVARAIVDMLFPAEDDGRIPIVSVTGTNGKTTTTRL----VAHILKQTGKVVG 509

Query: 143 YNNHIGVPL-------------TLARMPV---DVDFGIFELGMSHLGEIRFLTHLVRPHI 186
                GV +               AR  +    VD  + E      G +R      R  +
Sbjct: 510 MTTTDGVYIGKYLVEKGDNTGPASARRILMDPTVDAAVLETARG--GILREGLAFDRCDV 567

Query: 187 AVITTIAPAHLSNF--SGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHALGI 244
            V+T IA  HL     + IE++A  K  + E +   G   LN DD     +  K      
Sbjct: 568 GVVTNIAGDHLGIGDINTIEDLADVKRVVVEVVLPDGYAVLNADDPMVAAMAEKCKG--- 624

Query: 245 KTIYSFGKSKNADFQLRKWKQCSEQSWME----VQLQGKSMEVV---------HHGIGYH 291
           K  Y F    N               + E    V  +G     +           G    
Sbjct: 625 KIAY-FSMDPNNPTVAAHIADGGRAVYYENGYIVIARGGDEVAIARIAAIPLTMGGRVAF 683

Query: 292 MAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPA 351
             +N L  +     L   ++     +  F     +        N G   ++ + Y  NPA
Sbjct: 684 QIENALAAVAAAWALGVPIELIRAGIRTFDADAAQAPGRFNLFNLGGAHVLVD-YGHNPA 742

Query: 352 SMKAAISVLSQISPHGEGRRIAVLG--------DMCEMGEL 384
           +++A  + +         RRI V+G        D+ E GEL
Sbjct: 743 AIEAVGAAIRNWP---ARRRIGVIGGPGDRRDEDLVEQGEL 780


>gnl|CDD|178896 PRK00141, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 473

 Score = 37.8 bits (88), Expect = 0.007
 Identities = 38/138 (27%), Positives = 60/138 (43%), Gaps = 12/138 (8%)

Query: 80  SLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYAC 139
           S  + V G  DV  A  +L  A       T +A+TG+ GKTTT  ML   +         
Sbjct: 96  SQGLEVIG--DVELAW-RLDQAGVFGEPRTWLAVTGTNGKTTTTAMLAAMMQEGGFAAQA 152

Query: 140 IGSYNNHIGVPLTLA-RMPVDVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLS 198
           +G+    IGVP++ A      +D  + EL    L    +   L  P + V+  +A  H+ 
Sbjct: 153 VGN----IGVPVSAALVAQPRIDVLVAELSSFQL---HWSPTLT-PDVGVVLNLAEDHID 204

Query: 199 NFSGIEEIASAKAEIFEG 216
               + + A+ KA++  G
Sbjct: 205 WHGSMRDYAADKAKVLRG 222


>gnl|CDD|179461 PRK02705, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 459

 Score = 36.8 bits (86), Expect = 0.012
 Identities = 49/202 (24%), Positives = 80/202 (39%), Gaps = 39/202 (19%)

Query: 111 IAITGSVGKTTTKEMLTIALSSIKKT---YACIGSYNNHIGVPLT-LARMPV----DVDF 162
           + ITG+ GKTT     T  L+ I +     A       +IG     LA +        D+
Sbjct: 112 VGITGTNGKTTV----TALLAHILQAAGLNAPACG---NIGYAACELALLRSGKAQKPDW 164

Query: 163 GIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGT 222
            + EL  S+  E    +  + P I + TT  P HL     +E   + KA +   LE++  
Sbjct: 165 IVAELS-SYQIES---SPELAPKIGIWTTFTPDHLERHGTLENYFAIKASL---LERSEI 217

Query: 223 IFLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCS----EQSWMEVQLQG 278
             LN DD +   L+    +   K  ++  + K +        Q      E+ W  V  +G
Sbjct: 218 RILNGDDPY---LRQHRSSWP-KGYWTSTQGKASLLG-----QADGWILEEGW--VVERG 266

Query: 279 KSMEVVHH--GIGYHMAQNMLM 298
           + +  +      G H  QN+L+
Sbjct: 267 EPLFPLSALKMPGAHNLQNLLL 288


>gnl|CDD|179571 PRK03369, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 488

 Score = 36.3 bits (84), Expect = 0.018
 Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 23/111 (20%)

Query: 113 ITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVP-LTLARMPVD---VDFGIFELG 168
           +TG+ GKTTT  ML   L +  +     G+    IG P L +   P +   V+   F+L 
Sbjct: 122 VTGTNGKTTTTSMLHAMLIAAGRRSVLCGN----IGSPVLDVLDEPAELLAVELSSFQL- 176

Query: 169 MSHLGEIRFLTHL---VRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEG 216
                      H    +RP    +  IA  HL     +   A+AKA    G
Sbjct: 177 -----------HWAPSLRPEAGAVLNIAEDHLDWHGTMAAYAAAKARALTG 216


>gnl|CDD|184454 PRK14016, PRK14016, cyanophycin synthetase; Provisional.
          Length = 727

 Score = 35.9 bits (84), Expect = 0.020
 Identities = 39/149 (26%), Positives = 53/149 (35%), Gaps = 46/149 (30%)

Query: 110 IIAITGSVGKTTTKEMLTIALSSIKKT--YACI-GSYNNHIGVPLTL---------ARM- 156
           I+A+TG+ GKTTT  ++   L    K        G Y   I   L           AR  
Sbjct: 482 IVAVTGTNGKTTTTRLIAHILKLSGKRVGMTTTDGVY---IDGRLIDKGDCTGPKSARRV 538

Query: 157 ---PVDVDFGIFE----------LGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGI 203
              P DV+  + E          L               R  + V+T I   HL    GI
Sbjct: 539 LMNP-DVEAAVLETARGGILREGLAYD------------RCDVGVVTNIGEDHLGLG-GI 584

Query: 204 ---EEIASAKAEIFEGLEKTGTIFLNYDD 229
              E++A  K  + E ++  G   LN DD
Sbjct: 585 NTLEDLAKVKRVVVEAVKPDGYAVLNADD 613


>gnl|CDD|162392 TIGR01499, folC, folylpolyglutamate synthase/dihydrofolate
           synthase.  A mutation study of the FolC gene of E. coli
           suggests that both activitities belong to the same
           active site. Because some examples are monofunctional
           (and these cannot be separated phylogenetically), the
           model is treated as subfamily, not equivalog.
          Length = 397

 Score = 34.2 bits (79), Expect = 0.068
 Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 10/62 (16%)

Query: 158 VDVDFGIFELGMSHLGEIRFL--THLVRPHIAVITTIAPAHLSNFSG--IEEIASAKAEI 213
             VD  + E+G+   G    L  T+++ P ++VIT+I   H +   G  +EEIA  KA I
Sbjct: 109 AQVDVAVLEVGLG--GR---LDATNVIEPLVSVITSIGLDH-TEILGDTLEEIAWEKAGI 162

Query: 214 FE 215
            +
Sbjct: 163 IK 164


>gnl|CDD|178501 PLN02913, PLN02913, dihydrofolate synthetase.
          Length = 510

 Score = 30.6 bits (69), Expect = 0.93
 Identities = 22/59 (37%), Positives = 31/59 (52%), Gaps = 7/59 (11%)

Query: 159 DVDFGIFELGMSHLGEIRFLTHLVRPH---IAVITTIAPAHLSNFSG-IEEIASAKAEI 213
           +VD  + E G   LG  R  T+++       +VITTI   HL+   G +E IA AK+ I
Sbjct: 173 NVDIAVIEAG---LGGARDATNVIDSSGLAASVITTIGEEHLAALGGSLESIALAKSGI 228


>gnl|CDD|163482 TIGR03770, anch_rpt_perm, anchored repeat-type ABC transporter,
           permease subunit.  This protein family is the permease
           subunit of binding protein-dependent ABC transporter
           complex that strictly co-occurs with TIGR03769. TIGRFAMs
           model TIGR03769 describes a protein domain that occurs
           singly or as one of up to three repeats in proteins of a
           number of Actinobacteria, including Propionibacterium
           acnes KPA171202. The TIGR03769 domain occurs both in the
           adjacent gene for the substrate-binding protein and in
           additional (often nearby) proteins, often with
           LPXTG-like sortase recognition signals. Homologous
           permease subunits outside the scope of this family
           include manganese transporter MntB in Synechocystis sp.
           PCC 6803 and chelated iron transporter subunits. The
           function of this transporter complex is unknown.
          Length = 270

 Score = 30.5 bits (69), Expect = 0.99
 Identities = 18/75 (24%), Positives = 35/75 (46%)

Query: 80  SLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYAC 139
           ++ +PVF +D VL  L   AV   +++   I+ +   +    T  +LT  L  +      
Sbjct: 172 AMGLPVFLLDLVLYVLVTAAVVISVQTIGNILVLALLITPAATARLLTDRLGVMMALSPV 231

Query: 140 IGSYNNHIGVPLTLA 154
           IG   + +G+ L+ +
Sbjct: 232 IGGVGSFLGLYLSWS 246


>gnl|CDD|184108 PRK13518, PRK13518, carboxylate-amine ligase; Provisional.
          Length = 357

 Score = 30.5 bits (69), Expect = 1.1
 Identities = 13/26 (50%), Positives = 19/26 (73%), Gaps = 2/26 (7%)

Query: 206 IASAKAEIFEGLEKTG--TIFLNYDD 229
           +ASA+A+IFEGL  TG  T F +++ 
Sbjct: 179 LASARAKIFEGLPNTGMPTAFEDFEA 204


>gnl|CDD|178678 PLN03132, PLN03132, NADH dehydrogenase (ubiquinone) flavoprotein 1;
           Provisional.
          Length = 461

 Score = 30.2 bits (68), Expect = 1.1
 Identities = 22/71 (30%), Positives = 32/71 (45%), Gaps = 1/71 (1%)

Query: 307 TADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVLSQISPH 366
           + DV  AI  LS F+  E  G+   C    G+   I E      A ++  I +L +++  
Sbjct: 358 STDVVDAIARLSYFYKHESCGQCTPCREGTGWLWDIMERMKVGNAKLEE-IDMLQEVTKQ 416

Query: 367 GEGRRIAVLGD 377
            EG  I  LGD
Sbjct: 417 IEGHTICALGD 427


>gnl|CDD|131577 TIGR02525, plasmid_TraJ, plasmid transfer ATPase TraJ.  Members of
           this protein family are predicted ATPases associated
           with plasmid transfer loci in bacteria. This family is
           most similar to the DotB ATPase of a type-IV
           secretion-like system of obligate intracellular
           pathogens Legionella pneumophila and Coxiella burnetii
           (TIGR02524).
          Length = 372

 Score = 30.2 bits (68), Expect = 1.1
 Identities = 35/154 (22%), Positives = 56/154 (36%), Gaps = 37/154 (24%)

Query: 248 YSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVV-HHGIGYHMAQNMLMTLGIVSIL 306
           ++FG    AD   R +  CS     ++ LQG S  VV  HG     +   L  L +  ++
Sbjct: 1   FNFGPGLTADTLRRFFVHCSRHEVSDIHLQGGSPIVVERHGRQVPASSFPLDNLELERLV 60

Query: 307 T--------------ADVDTAIK----ALSVFHPKEGRGKRYRCALNQGFFTLIDESYNA 348
                          A VD AI+        +    G   R+RC   Q           A
Sbjct: 61  DEVFGPEIKPTVKSGAPVDRAIQLRGDENGRYGLGRGERVRFRCNFIQ-----------A 109

Query: 349 NPASMKAAISVLSQISPHGEGRRIAVLGDMCEMG 382
               ++ AIS+  ++ P       + + D+ +MG
Sbjct: 110 TIGKLETAISLTLRVIP-------SDIPDLKQMG 136


>gnl|CDD|180082 PRK05439, PRK05439, pantothenate kinase; Provisional.
          Length = 311

 Score = 30.2 bits (69), Expect = 1.2
 Identities = 13/24 (54%), Positives = 15/24 (62%), Gaps = 2/24 (8%)

Query: 110 IIAITGSV--GKTTTKEMLTIALS 131
           II I GSV  GK+TT  +L   LS
Sbjct: 88  IIGIAGSVAVGKSTTARLLQALLS 111


>gnl|CDD|149875 pfam08941, USP8_interact, USP8 interacting.  This domain interacts
           with the UBP deubiquitinating enzyme USP8.
          Length = 179

 Score = 29.0 bits (65), Expect = 2.7
 Identities = 10/28 (35%), Positives = 13/28 (46%)

Query: 278 GKSMEVVHHGIGYHMAQNMLMTLGIVSI 305
           GK   VV      HM +N+    G+V I
Sbjct: 146 GKQAVVVLGCENTHMPENLRPEPGLVMI 173


>gnl|CDD|179086 PRK00683, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 418

 Score = 28.6 bits (64), Expect = 3.7
 Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 4/41 (9%)

Query: 111 IAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPL 151
           + ITGS GKTTT   L   L  +      +G+    IG+P+
Sbjct: 105 LGITGSTGKTTTILFLEHLLKRLGIPAFAMGN----IGIPI 141


>gnl|CDD|183493 PRK12389, PRK12389, glutamate-1-semialdehyde aminotransferase;
           Provisional.
          Length = 428

 Score = 28.4 bits (64), Expect = 4.1
 Identities = 15/38 (39%), Positives = 19/38 (50%)

Query: 349 NPASMKAAISVLSQISPHGEGRRIAVLGDMCEMGELSQ 386
           NPASM A I+ L  +   G   ++  LG M E G L  
Sbjct: 304 NPASMAAGIACLEVLQQEGVYEKLDRLGAMLEEGILEA 341


>gnl|CDD|178442 PLN02850, PLN02850, aspartate-tRNA ligase.
          Length = 530

 Score = 28.5 bits (64), Expect = 4.1
 Identities = 10/24 (41%), Positives = 12/24 (50%), Gaps = 3/24 (12%)

Query: 421 SIHVHYSETMD---GLFLFIQSSL 441
            I  HYSE +D    LF+ I   L
Sbjct: 323 EIKEHYSEVLDVVDELFVAIFDGL 346


>gnl|CDD|180747 PRK06917, PRK06917, hypothetical protein; Provisional.
          Length = 447

 Score = 28.5 bits (64), Expect = 4.2
 Identities = 10/34 (29%), Positives = 17/34 (50%)

Query: 345 SYNANPASMKAAISVLSQISPHGEGRRIAVLGDM 378
           + +ANP S   A++VL  +  H    + A  G+ 
Sbjct: 303 TLSANPLSAATALAVLEYMEKHNLPEKAAEKGEY 336


>gnl|CDD|185482 PTZ00150, PTZ00150, phosphoglucomutase-2-like protein; Provisional.
          Length = 584

 Score = 27.7 bits (62), Expect = 6.7
 Identities = 14/46 (30%), Positives = 26/46 (56%), Gaps = 4/46 (8%)

Query: 286 HGIGYHMAQNMLMTLGIVSILT----ADVDTAIKALSVFHPKEGRG 327
           HG+G    Q  L T+G+ ++L+    A+ D     ++  +P+EG+G
Sbjct: 237 HGVGTRFVQKALHTVGLPNLLSVAQQAEPDPEFPTVTFPNPEEGKG 282


>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 = 27.7 bits (62), Expect = 7.5
 Identities = 16/36 (44%), Positives = 19/36 (52%), Gaps = 3/36 (8%)

Query: 108 ATIIAIT---GSVGKTTTKEMLTIALSSIKKTYACI 140
           A +I IT   G VGKTTT   L  AL+ + K    I
Sbjct: 1   ARVIVITSGKGGVGKTTTTANLGTALARLGKKVVLI 36


>gnl|CDD|148468 pfam06869, DUF1258, Protein of unknown function (DUF1258).  This
           family represents a conserved region approximately 260
           residues long within a number of hypothetical proteins
           of unknown function that seem to be specific to C.
           elegans. Note that this family contains a number of
           conserved cysteine and histidine residues.
          Length = 258

 Score = 27.1 bits (60), Expect = 9.4
 Identities = 13/63 (20%), Positives = 25/63 (39%), Gaps = 4/63 (6%)

Query: 375 LGDMCEMGELSQSFHIDLAEV----LSLYNISHVWLSGFHVLALKDALPRSIHVHYSETM 430
           +GD  ++ EL +S+   + E+        N SH   S F            + +    ++
Sbjct: 48  IGDFSQILELVESYANIIMEIREQLKEGRNSSHNLNSPFFSKKWLSESDNHLWLSTVSSI 107

Query: 431 DGL 433
           DG+
Sbjct: 108 DGI 110


  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
   0.322    0.137    0.401 

Gapped
Lambda     K      H
   0.267   0.0653    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 7,737,352
Number of extensions: 509523
Number of successful extensions: 1081
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1024
Number of HSP's successfully gapped: 62
Length of query: 472
Length of database: 5,994,473
Length adjustment: 97
Effective length of query: 375
Effective length of database: 3,898,497
Effective search space: 1461936375
Effective search space used: 1461936375
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (26.7 bits)