RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780821|ref|YP_003065234.1| FolC bifunctional protein
[Candidatus Liberibacter asiaticus str. psy62]
         (429 letters)



>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 =  305 bits (783), Expect = 1e-83
 Identities = 151/424 (35%), Positives = 215/424 (50%), Gaps = 34/424 (8%)

Query: 6   LLKMGYLLEDLGRPQDRLPPVIHIGGTNGKGSVASFSQRLLETSGLSVHVHTSPHLIRWN 65
           L +M  LLE LG PQD L PVIH+ GTNGKGS  +F + +L  +G  V + TSPHL+ +N
Sbjct: 1   LERMKKLLEALGNPQD-LYPVIHVAGTNGKGSTCAFLESILRAAGYKVGLFTSPHLVSFN 59

Query: 66  ERFRLGVKGGRGRLVEDVELLDVFRRVR-RVKS-AQNLTIFELSIATALVLFSKYPADCA 123
           ER R+      G  + D EL   F +VR  ++  +Q  T FEL    A + F++   D A
Sbjct: 60  ERIRIN-----GEPISDEELAQAFEQVRPILEKLSQQPTYFELLTLLAFLYFAQAQVDVA 114

Query: 124 IIEVGLGGSLDATNIIEKVAVSVITSISLDHEKILGNTVSAIAKDKSGIIKPGCPVVIGH 183
           ++EVGLGG LDATN+IE + VSVITSI LDH +ILG+T+  IA +K+GIIK G P+V G 
Sbjct: 115 VLEVGLGGRLDATNVIEPL-VSVITSIGLDHTEILGDTLEEIAWEKAGIIKEGVPIVTGP 173

Query: 184 QVYDEVREILVSKAEKMGCPYNVYGDDF-YAFEKNKCLVYQDKISQTNLTVLGLVGEHQY 242
           Q   E   +L  KA++ G P  V G DF Y+      L +           L L+G+HQ 
Sbjct: 174 QE-PEALNVLKKKAQEKGAPLFVVGRDFNYSETDENYLSFSGANLFLEPLALSLLGDHQA 232

Query: 243 INAATAICAV---QMAGFTLEKECINAALQSVQWFGRLQKITEGPLLNKLPDHSEVWIDG 299
            NAA A+ A+         L +E I   L +  W GRL+ ++E        D+  + +DG
Sbjct: 233 ENAALALAALEVLGKQRPKLSEEAIRKGLANTIWPGRLEILSE--------DNPNILLDG 284

Query: 300 GHNPNAGLVVSKEISKLKGSSNKPFYLVIGMVEGKKYGRYLEAFVELSPIVLSVSLICRG 359
            HNP++   +++   K    + +P  L+ G +  K     L     +    + V+     
Sbjct: 285 AHNPHSAEALAEWFKKRF--NGRPIILLFGALADKDAAAMLAPLKPVVDKEVFVTPFDYP 342

Query: 360 RERQSISITPKVLMQEAKKLGFQAMACSSMIEALSRVRKINEELPPPLILIAGSLYLAGE 419
           R     +     L   A+  G +        EAL+     + E     IL+ GSLYL GE
Sbjct: 343 R-----ADDAADLAALAETFGKE--TVEDWREALALALNASAE---DDILVTGSLYLVGE 392

Query: 420 ALRE 423
             + 
Sbjct: 393 VRKL 396


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

 Score =  182 bits (464), Expect = 1e-46
 Identities = 131/460 (28%), Positives = 203/460 (44%), Gaps = 56/460 (12%)

Query: 6   LLKMGYLLEDLGRPQDRLPPVIHIGGTNGKGSVASFSQRLLETSGLSVHVHTSPHLIRWN 65
           L +M  L++ LG P  +    +H+ GT GKGS A+F   +L   G SV  +TSPHL    
Sbjct: 58  LGRMRRLMDRLGNPHSKFK-AVHVAGTKGKGSTAAFLSNILRAQGYSVGCYTSPHLRSIR 116

Query: 66  ERFRLGVKGGRGRLVEDVELLDVFRRVR----RVKSAQN--LTIFELSIATALVLFSKYP 119
           ER  +G  G     V    L D+F  ++         +N  LT FE+  A A  LF++  
Sbjct: 117 ERISVGKLGKP---VSTNTLNDLFHGIKPILDEAIQLENGSLTHFEVLTALAFKLFAQEN 173

Query: 120 ADCAIIEVGLGGSLDATNII--EKVAVSVITSISLDHEKILGNTVSAIAKDKSGIIKPGC 177
            D A+IE GLGG+ DATN+I    +A SVIT+I  +H   LG ++ +IA  KSGIIK G 
Sbjct: 174 VDIAVIEAGLGGARDATNVIDSSGLAASVITTIGEEHLAALGGSLESIALAKSGIIKQGR 233

Query: 178 PVVIGHQVYDEVREILVSKAEKMGCPYNVYGDDFYAFEKN-----KCLVYQD----KISQ 228
           PVV+G      +  IL  KA  M  P         A +       K ++  +    +   
Sbjct: 234 PVVLGGPFLPHIESILRDKASSMNSPV------VSASDPGVRSSIKGIITDNGKPCQSCD 287

Query: 229 TNLTV--------------LGLVGEHQYINAATAICA---VQMAGFTLEKECINAALQSV 271
             + V              L ++G HQ  NA TA CA   ++  G+ +    I A L++ 
Sbjct: 288 IVIRVEKDDPLFIELSDVNLRMLGSHQLQNAVTAACAALCLRDQGWRISDASIRAGLENT 347

Query: 272 QWFGRLQKITEGPLLNKLPDHSEVWIDGGHNPNAGLVVSKEISKLKGSSNKPFYLVIGMV 331
              GR Q +T           + V +DG H   +   +   I            LV+ M 
Sbjct: 348 NLLGRSQFLTSKEAEVLGLPGATVLLDGAHTKESAKALVDTIKTAFPE--ARLALVVAMA 405

Query: 332 EGKKYGRYLEAFV---ELSPIVLSVSLICRGRERQ-SISITPKVLMQEAKKLGFQAMACS 387
             K +  +   F+   +   + L+ + I  G+ R  S S   +  ++ A +LG + +   
Sbjct: 406 SDKDHLAFASEFLSGLKPEAVFLTEADIAGGKSRSTSASALKEAWIKAAPELGIETLLAE 465

Query: 388 ------SMIEALSRVRKINEELPPPLILIAGSLYLAGEAL 421
                 S+++A + +RK     P  ++ + GSL++    L
Sbjct: 466 NNSLLKSLVDASAILRKARTLDPSSVVCVTGSLHIVSAVL 505


>gnl|CDD|178469 PLN02881, PLN02881, tetrahydrofolylpolyglutamate synthase.
          Length = 530

 Score =  167 bits (426), Expect = 4e-42
 Identities = 103/300 (34%), Positives = 142/300 (47%), Gaps = 45/300 (15%)

Query: 26  VIHIGGTNGKGSVASFSQRLLETSGLSVHVHTSPHLIRWNERFRLGVKGGRGRLVEDVEL 85
           VIH+ GT GKGS  +F++ +L   G    + TSPHLI   ERFRL      G  + + + 
Sbjct: 63  VIHVAGTKGKGSTCTFTESILRNCGFRTGLFTSPHLIDVRERFRLD-----GVDISEEKF 117

Query: 86  LDVF---RRVRRVKSAQNL---TIFELSIATALVLFSKYPADCAIIEVGLGGSLDATNII 139
           L  F       + K+ ++L     F      A  +FS    D AI+EVGLGG LDATN++
Sbjct: 118 LRYFWWCWDRLKEKTTEDLPMPAYFRFLTLLAFKIFSAEQVDVAILEVGLGGRLDATNVV 177

Query: 140 EKVAVSVITSISLDHEKILGNTVSAIAKDKSGIIKPGCPVVIGHQVYDEVREILVSKAEK 199
           +K  V  ITS+  DH +ILG+T+  IA +K+GI KPG P     Q  DE   +L  +A +
Sbjct: 178 QKPVVCGITSLGYDHMEILGDTLGKIAGEKAGIFKPGVPAFTVPQP-DEAMRVLEERASE 236

Query: 200 MGCPYNVYGD-DFYAFEKNKCLVYQDKISQTNLTVLGLVGEHQYINAATAI----CAVQM 254
           +G P  V    D Y     K               LGL GEHQY+NA  A+      +Q 
Sbjct: 237 LGVPLQVVEPLDSYGLSGLK---------------LGLAGEHQYLNAGLAVALCSTWLQR 281

Query: 255 AGFTLEKECINAA----------LQSVQWFGRLQKITEGPLLNKLPDHSEVW-IDGGHNP 303
            G   E E +  A          L +    GR Q + +   +N       V+ +DG H+P
Sbjct: 282 TG-HEEFEALLQAGTLPEQFIKGLSTASLQGRAQVVPD-SYINSEDSGDLVFYLDGAHSP 339


>gnl|CDD|182774 PRK10846, PRK10846, bifunctional folylpolyglutamate synthase/
           dihydrofolate synthase; Provisional.
          Length = 416

 Score =  147 bits (374), Expect = 4e-36
 Identities = 100/332 (30%), Positives = 159/332 (47%), Gaps = 31/332 (9%)

Query: 9   MGYLLEDLGRPQDRL------PPVIHIGGTNGKGSVASFSQRLLETSGLSVHVHTSPHLI 62
           +G  LE + +   RL      P V  + GTNGKG+     + +L  +G  V V++SPHL+
Sbjct: 30  LG--LERVSQVAARLDLLKPAPFVFTVAGTNGKGTTCRTLESILMAAGYRVGVYSSPHLV 87

Query: 63  RWNERFRLGVKGGRGRLVEDVELLDVFRRVRRVKSAQNLTIFELSIATALVLFSKYPADC 122
           R+ ER R+     +G+ + +      F  +   +   +LT FE    +AL LF +   D 
Sbjct: 88  RYTERVRI-----QGQELPESAHTASFAEIEAARGDISLTYFEYGTLSALWLFKQAQLDV 142

Query: 123 AIIEVGLGGSLDATNIIEKVAVSVITSISLDHEKILGNTVSAIAKDKSGIIKPGCPVVIG 182
            I+EVGLGG LDATNI++   V+V+TSI+LDH   LG    +I ++K+GI +   P V+G
Sbjct: 143 VILEVGLGGRLDATNIVD-ADVAVVTSIALDHTDWLGPDRESIGREKAGIFRAEKPAVVG 201

Query: 183 HQVYDEVREILVSKAEKMGCPYNVYGDDFYAFEKNKCLVYQDKISQTNLTVLGLVGEHQY 242
                ++   +   A++ G      G D+     +    + D      L  L L      
Sbjct: 202 EP---DMPSTIADVAQEKGALLQRRGVDWNYSVTDHDWAFSDG--DGTLENLPLPNVPL- 255

Query: 243 INAATAICAVQMAGFTLEKECINAALQSVQWFGRLQKITEGPLLNKLPDHSEVWIDGGHN 302
            NAATA+ A++ +G  + ++ I   + S    GR Q ++E P +          +D  HN
Sbjct: 256 PNAATALAALRASGLEVSEQAIRDGIASAILPGRFQIVSESPRV---------ILDVAHN 306

Query: 303 PNAGLVVSKEISKLKGSSNKPFYLVIGMVEGK 334
           P+A   ++  +  L    N     VIGM+  K
Sbjct: 307 PHAAEYLTGRLKAL--PKNGRVLAVIGMLHDK 336


>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 = 41.1 bits (97), Expect = 5e-04
 Identities = 43/181 (23%), Positives = 71/181 (39%), Gaps = 29/181 (16%)

Query: 121 DCAIIEVGLG--GSLDATNIIEKVAVSVITSISLDHEKILGNTVSAIAKDKSGIIKPGCP 178
           D A++E+G    G +     I K  ++VIT+I   H +  G ++  IA+ K  I++    
Sbjct: 127 DYAVLEMGASHPGEIAYLAEIAKPDIAVITNIGPAHLEGFG-SLEGIAEAKGEILQGLKE 185

Query: 179 ---VVIG--HQVYDEVREILVSKAEKMGCPYNVYGDDFYAFEKNKCLVYQDKISQTNLTV 233
               VI      + +  + L +KA      +   G DF A       +    +  T  T+
Sbjct: 186 NGIAVINADDPAFAKFAKRLPNKAILS---FGFEGGDFSAA-----DISYSALGSTGFTL 237

Query: 234 ----------LGLVGEHQYINAATAICAVQMAGFTLEKECINAALQSVQW-FGRLQKITE 282
                     L L+G H  +NA  A       G  LE+  I   L  ++   GR +  T+
Sbjct: 238 VAPGGEFEVSLPLLGRHNVMNALAAAALALELGIPLEE--IAEGLAELKLVKGRFEIQTK 295

Query: 283 G 283
            
Sbjct: 296 N 296


>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 = 40.1 bits (94), Expect = 0.001
 Identities = 55/228 (24%), Positives = 88/228 (38%), Gaps = 32/228 (14%)

Query: 123 AIIEVGLG--GSLDATNIIEKVAVSVITSISLDHEKILGNTVSAIAKDKSGII----KPG 176
           A+ E+G+   G +     I    V+++T+   +H++ + + V A+A+ K  II    + G
Sbjct: 661 AVFELGMNHPGEIAYLAAIAAPTVALVTNAQREHQEFMHS-VEAVARAKGEIIAALPEDG 719

Query: 177 CPVVIGHQVYDEVREILVSKAEKMGCPY----NVYGDDF------YAFEKNKCLVYQDKI 226
             VV G   Y  +   L      +        +VY +              +C V     
Sbjct: 720 VAVVNGDDPYTAIWAKLAGARRVLRFGLQPGADVYAEKIAKDISVGEAGGTRCQVVTPA- 778

Query: 227 SQTNLTVLGLVGEHQYINAATAICAVQMAGFTLEKECINAALQSVQWF-GRLQKITEGPL 285
               +  L L+GEH   NA  AI     AG +L++    A L+  Q   GR+Q+      
Sbjct: 779 GSAEVY-LPLIGEHNLRNALAAIACALAAGASLKQIR--AGLERFQPVAGRMQRRRL--- 832

Query: 286 LNKLPDHSEVWIDGGHNPNAGLVVSKEISKLKGSSNKPFYLVIG-MVE 332
                      ID  +N N    +   I  L    N P  LV+G M+E
Sbjct: 833 -----SCGTRIIDDTYNANP-DSMRAAIDVLAELPNGPRALVLGDMLE 874



 Score = 32.8 bits (75), Expect = 0.17
 Identities = 62/306 (20%), Positives = 102/306 (33%), Gaps = 61/306 (19%)

Query: 17  GRPQDRLPPVIHIGGTNGKGSVASFSQRLLETSGLSVHVHTSPHLIRWNERFRLGVKGGR 76
           GRP ++L  ++ + GTNGK S A    +LL   G                    G  G  
Sbjct: 106 GRPSEQLS-LVAVTGTNGKTSCAQLLAQLLTRLGKPC-----------------GSIGTL 147

Query: 77  GRLVEDVELLDVFRRVRRVKSAQNLTIFELSIATALVLFSKYPADCAIIEV---GLG-GS 132
           G  ++   +                T   + +   L       AD   +E    GL  G 
Sbjct: 148 GARLDGRLI-----------PGSLTTPDAIILHRILARMRAAGADAVAMEASSHGLEQGR 196

Query: 133 LDATNIIEKVAVSVITSISLDHEKILGNTVSAIAKDKSGI---IKPGCPVVI------GH 183
           LD      ++AV+  T+++ DH    G T+    + K+ +   +      VI        
Sbjct: 197 LDGL----RIAVAGFTNLTRDHLDYHG-TMQDYEEAKAALFSKLPGLGAAVINADDPAAA 251

Query: 184 QVYDEVREILVSKAEKMGCPYNVYGDDFYAFEKNKC---LVYQDKISQTNLTVLGLVGEH 240
           ++   +   L           +V   D  A   +     L   D   Q    V  L+G  
Sbjct: 252 RLLAALPRGLKVGYSPQNAGADVQARDLRA-TAHGQVFTLATPDGSYQ---LVTRLLGRF 307

Query: 241 QYINAATAICAVQMAGFTLEKECIN-AALQSVQWFGRLQKITEGPLLNKLPDHSEVWIDG 299
              N      A++  G  L +     AA+  V   GR++++       + P    V +D 
Sbjct: 308 NVSNLLLVAAALKKLGLPLAQIARALAAVSPVP--GRMERVGPTA-GAQGPL---VVVDY 361

Query: 300 GHNPNA 305
            H P+A
Sbjct: 362 AHTPDA 367


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

 Score = 38.4 bits (90), Expect = 0.003
 Identities = 49/237 (20%), Positives = 74/237 (31%), Gaps = 62/237 (26%)

Query: 29  IGGTNGKGSVASFSQRLLETSGLSVHVHTSPHLIRWNERFRLGVKGGRGRLVEDVELLDV 88
           I GTNGK +       LL  +G                                      
Sbjct: 1   ITGTNGKTTTTELIAALLSAAG-------------------------------------- 22

Query: 89  FRRVRRVKSAQNLTIFELSIATALVLFSKYPADCAIIEVGLGGSLDA-TNIIEKVAVSVI 147
                 V +  N T   + +   L L  +  AD A++E+   G  +     + K  ++VI
Sbjct: 23  ----GVVGTGGN-TNNAIGLPLLLALMERKGADYAVLELSSFGLGEGRLEGLAKPDIAVI 77

Query: 148 TSISLDHEKILGNTVSAIAKDKSGI---IKPGCPVVIGHQVYDEVREILVSKAEKMGCPY 204
           T+IS DH    G T+   A  K+ I   +      VI     D+    L  + +  G   
Sbjct: 78  TNISPDHLDYHG-TMENYAAAKAEIFEGLPEDGIAVINA---DD--PELAKRLKNAGAKV 131

Query: 205 NVYG-DDFYAFEKNKCLVYQDKISQTNLTV--------LGLVGEHQYINAATAICAV 252
             +G ++          V  +       TV        L L G H   NA  A+ A 
Sbjct: 132 ITFGLENEADDRAANIYVSSEGGKIVLFTVPGGELEISLPLPGRHNVYNALAALAAA 188


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

 Score = 34.6 bits (80), Expect = 0.049
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 24  PPVIHIGGTNGKGSVASFSQRLLETSGLSVHV 55
           P V+ I GTNGK +  + +  L E +G  V V
Sbjct: 121 PKVLAITGTNGKTTTTALTGLLCERAGKKVAV 152


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

 Score = 33.9 bits (78), Expect = 0.089
 Identities = 13/30 (43%), Positives = 17/30 (56%)

Query: 24  PPVIHIGGTNGKGSVASFSQRLLETSGLSV 53
            PV+ I GTNGK +  S    LL+ +GL  
Sbjct: 102 LPVVAITGTNGKTTTTSLLYHLLKAAGLKA 131


>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 = 32.7 bits (75), Expect = 0.20
 Identities = 62/307 (20%), Positives = 97/307 (31%), Gaps = 59/307 (19%)

Query: 17  GRPQDRLPPVIHIGGTNGKGSVASFSQRLLETSGLSVHVHTSPHLIRWNERFRLGVKGGR 76
           G P  +L  VI + GTNGK +  S   +LL   G                  + G+ G  
Sbjct: 79  GHPSKKLK-VIGVTGTNGKTTTTSLIAQLLRLLGK-----------------KTGLIGTI 120

Query: 77  G-RLVEDVELLDVFRRVRRVKSAQNLTIFELSIATALVLFSKYPADCAIIEV---GLG-G 131
           G RL  +  + +          A   T   L++ + L    +  A  A++EV    L  G
Sbjct: 121 GYRLGGNDLIKNP---------AALTTPEALTLQSTLAEMVEAGAQYAVMEVSSHALAQG 171

Query: 132 SLDATNIIEKVAVSVITSISLDHEKILGNTVSAIAKDKSGIIKPGCPVVIGHQVYDEVRE 191
            +           +V T++S DH    G T+      K+ +              D+   
Sbjct: 172 RVRGVR----FDAAVFTNLSRDHLDFHG-TMENYFAAKASLFTELGLKRFAVINLDDEYG 226

Query: 192 ILVSKAEKMGCPY---NVYGDDFYAFEKNKCLVYQDKISQTNLTVLG--------LVGEH 240
               K               D      K     Y  +  Q               L+G  
Sbjct: 227 AQFVKRLPKDITVSAITQPADGRAQDIKITDSGYSFEGQQFTFETPAGEGHLHTPLIGRF 286

Query: 241 QYINAATAICAV-QMAGFTLEKECINAALQSVQWF-GRLQKITEGPLLNKLPDHSEVWID 298
              N   A+  +  + G  LE   I AAL+  +   GR++ +  G           V +D
Sbjct: 287 NVYNLLAALATLLHLGGIDLED--IVAALEKFRGVPGRMELVDGGQKFL-------VIVD 337

Query: 299 GGHNPNA 305
             H P+A
Sbjct: 338 YAHTPDA 344


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

 Score = 32.0 bits (74), Expect = 0.27
 Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)

Query: 17  GRPQDRLPPVIHIGGTNGKGSVASFSQRLLETSG 50
           G P D+L  +I + GTNGK + A    ++L   G
Sbjct: 89  GHPSDKLK-LIGVTGTNGKTTTAYLLAQILRLLG 121



 Score = 28.9 bits (66), Expect = 2.5
 Identities = 20/73 (27%), Positives = 30/73 (41%), Gaps = 10/73 (13%)

Query: 234 LGLVGEHQYINAATAICAVQMAGFTLEKECINAALQSVQWF-GRLQKITEGPLLNKLPDH 292
             L+G     N   A+ A+   G  LE     AAL  +Q   GR++++  G         
Sbjct: 272 SPLIGRFNVSNLLAALAALLALGVPLED--ALAALAKLQGVPGRMERVDAG-------QG 322

Query: 293 SEVWIDGGHNPNA 305
             V +D  H P+A
Sbjct: 323 PLVIVDYAHTPDA 335


>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 = 31.7 bits (72), Expect = 0.38
 Identities = 32/150 (21%), Positives = 56/150 (37%), Gaps = 33/150 (22%)

Query: 25  PVIHIGGTNGKGSVASFSQRLLETSGLSVHVHTSPHLIRWNERFRLGVKGGRGRLVEDVE 84
           P++ + GTNGK +       +L+ +G  V + T+                  G  +    
Sbjct: 480 PIVSVTGTNGKTTTTRLVAHILKQTGKVVGMTTT-----------------DGVYIGK-- 520

Query: 85  LLDVFRRVRRVKSAQNLTIFELSIATALVLFSKYPADCAIIEVGLGGSLDATNIIEKVAV 144
                     V+   N        A+A  +      D A++E   GG L      ++  V
Sbjct: 521 --------YLVEKGDN-----TGPASARRILMDPTVDAAVLETARGGILREGLAFDRCDV 567

Query: 145 SVITSISLDHEKILG-NTVSAIAKDKSGII 173
            V+T+I+ DH  I   NT+  +A  K  ++
Sbjct: 568 GVVTNIAGDHLGIGDINTIEDLADVKRVVV 597


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

 Score = 29.7 bits (67), Expect = 1.4
 Identities = 36/157 (22%), Positives = 68/157 (43%), Gaps = 19/157 (12%)

Query: 116 SKYPADC--AIIEVGLGGSLDATNIIEKVA--VSVITSISLDHEKILGNTVSAIAKDKSG 171
           ++ PAD   A+ E+G+  + +   +++ V   V++IT++   H +     + AIA  K+ 
Sbjct: 154 ARCPADARFAVFEIGMNHAGEIEPLVKMVRPHVAIITTVEPVHLEFFSG-IEAIADAKAE 212

Query: 172 I---IKPGCPVVIGHQVYDEVREILVSKAEKMGCPYNV-YGDDFYAFEKNKCLVYQDKIS 227
           I   ++PG   V+        R  L + A   G    V +G D  A  +   +      S
Sbjct: 213 IFTGLEPGGAAVLNRDNPQFDR--LAASARAAGIARIVSFGADEKADARLLDVALHADCS 270

Query: 228 QTNLTV--------LGLVGEHQYINAATAICAVQMAG 256
             +  +        LG+ G H  +N+   + A ++AG
Sbjct: 271 AVHADILGHDVTYKLGMPGRHIAMNSLAVLAAAELAG 307


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

 Score = 29.4 bits (66), Expect = 1.9
 Identities = 12/31 (38%), Positives = 19/31 (61%)

Query: 25  PVIHIGGTNGKGSVASFSQRLLETSGLSVHV 55
           PVI I G+NGK +V   +  + + +G+ V V
Sbjct: 109 PVIAITGSNGKSTVTDLTGVMAKAAGVKVAV 139



 Score = 29.0 bits (65), Expect = 2.4
 Identities = 33/132 (25%), Positives = 51/132 (38%), Gaps = 24/132 (18%)

Query: 234 LGLVGEHQYINAATAICAVQMAGFTLEKECINAALQSVQWFG-RLQKITEGPLLNKLPDH 292
           L LVG H   N    +  +  AG    K     AL+S      R Q + +        +H
Sbjct: 263 LKLVGRHNVANVLVVLALLDAAGVDYRKAL--DALKSYTGLTHRCQVVAD--------NH 312

Query: 293 SEVWIDGGHNPNAGLVVSKEISKLKG-SSNKPFYLVIGMVEGKKYGRYLEAFVELSPIV- 350
              W++     N    V+  ++ L G       YL++G V GK        F  L P++ 
Sbjct: 313 GIKWVNDSKATN----VASTLAALSGLEIEGKLYLLVGGV-GKG-----ADFSPLKPVLA 362

Query: 351 -LSVSLICRGRE 361
            L++ L C G +
Sbjct: 363 TLNLQLCCFGED 374


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

 Score = 29.0 bits (66), Expect = 2.3
 Identities = 10/29 (34%), Positives = 16/29 (55%)

Query: 25  PVIHIGGTNGKGSVASFSQRLLETSGLSV 53
           P++ + GTNGK +       +L+ SG  V
Sbjct: 481 PIVAVTGTNGKTTTTRLIAHILKLSGKRV 509


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

 Score = 28.8 bits (65), Expect = 2.8
 Identities = 10/31 (32%), Positives = 18/31 (58%)

Query: 25  PVIHIGGTNGKGSVASFSQRLLETSGLSVHV 55
           P++ I G+NGK +V +    + + +G  V V
Sbjct: 106 PIVAITGSNGKSTVTTLVGEMAKAAGWKVGV 136


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

 Score = 28.3 bits (63), Expect = 3.6
 Identities = 12/27 (44%), Positives = 14/27 (51%)

Query: 25  PVIHIGGTNGKGSVASFSQRLLETSGL 51
            VI I G+NGK +V S    L    GL
Sbjct: 111 KVIAITGSNGKTTVTSLVGYLCIKCGL 137


>gnl|CDD|183298 PRK11752, PRK11752, putative S-transferase; Provisional.
          Length = 264

 Score = 28.0 bits (63), Expect = 4.6
 Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 4/29 (13%)

Query: 55  VHTSPHLIRWNERF--RLGVKGGRGRLVE 81
           V +  H+ RW +    R  VK  RGR+V 
Sbjct: 233 VGSYKHVQRWAKEIAERPAVK--RGRIVN 259


>gnl|CDD|130808 TIGR01747, diampropi_NH3ly, diaminopropionate ammonia-lyase family.
            This small subfamily includes diaminopropionate
           ammonia-lyase from Salmonella typhimurium and a small
           number of close homologs, about 50 % identical in
           sequence. The enzyme is a pyridoxal phosphate-binding
           homodimer homologous to threonine dehydratase (threonine
           deaminase).
          Length = 376

 Score = 27.9 bits (62), Expect = 4.6
 Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 9/53 (16%)

Query: 369 PKVLMQEAKKLGFQAMACSSMIEALSRVRKINEELPPPLILIAGSLYLAGEAL 421
           P  +MQ     G+  +A     EA+ ++R++    P  ++L AG   +AG  L
Sbjct: 181 PTWIMQ-----GYATLA----DEAVEQLREMGSVTPTHVLLQAGVGSMAGGVL 224


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

 Score = 27.5 bits (62), Expect = 6.0
 Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 9/53 (16%)

Query: 234 LGLVGEHQYINAATAICAVQMAGFTLEKECINAALQSVQWFG----RLQKITE 282
           + L G H   NA  AI A ++ G  +  E I   L +   F     RLQ +  
Sbjct: 269 IVLPGSHNLENALAAIAAAKLLG--VSNEAIREVLST---FSGVKHRLQYVGT 316



 Score = 27.1 bits (61), Expect = 9.0
 Identities = 9/31 (29%), Positives = 16/31 (51%)

Query: 25  PVIHIGGTNGKGSVASFSQRLLETSGLSVHV 55
           P+I I G+NGK +  +    +L+  G    +
Sbjct: 109 PIIGITGSNGKTTTTTLIGEMLKAGGQHALL 139


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

 Score = 27.6 bits (62), Expect = 6.2
 Identities = 12/32 (37%), Positives = 18/32 (56%)

Query: 24  PPVIHIGGTNGKGSVASFSQRLLETSGLSVHV 55
            PVI I G+NGK +V +    + + +G  V V
Sbjct: 108 APVIAITGSNGKSTVTTLVGEMAKAAGKRVAV 139


>gnl|CDD|132195 TIGR03151, enACPred_II, putative enoyl-(acyl-carrier-protein)
           reductase II.  This oxidoreductase of the 2-nitropropane
           dioxygenase family (pfam03060) is commonly found in
           apparent operons with genes involved in fatty acid
           biosynthesis. Furthermore, this genomic context
           generally includes the fabG 3-oxoacyl-[ACP] reductase
           and lacks the fabI enoyl-[ACP] reductase.
          Length = 307

 Score = 27.8 bits (62), Expect = 6.3
 Identities = 26/87 (29%), Positives = 36/87 (41%), Gaps = 27/87 (31%)

Query: 297 IDGGHNPNAGLVVSKEISKLKGSSNKPF----YLVIGMVE-------------------- 332
           I  G+ P    VV KEI K+K  ++KPF     L+   V+                    
Sbjct: 40  IGAGNAPPD--VVRKEIRKVKELTDKPFGVNIMLLSPFVDELVDLVIEEKVPVVTTGAGN 97

Query: 333 -GKKYGRYLEAFVELSPIVLSVSLICR 358
            GK   R  E  V++ P+V SV+L  R
Sbjct: 98  PGKYIPRLKENGVKVIPVVASVALAKR 124


>gnl|CDD|180006 PRK05306, infB, translation initiation factor IF-2; Validated.
          Length = 787

 Score = 27.2 bits (61), Expect = 9.4
 Identities = 11/42 (26%), Positives = 23/42 (54%), Gaps = 1/42 (2%)

Query: 365 ISITPKVLMQEAKKLGFQAMACSSMIEALSRVRKINEELPPP 406
           + ++ K L+++ K+LG +  + SS +E     RK+ + L   
Sbjct: 13  LGVSSKELLEKLKELGIEVKSHSSTVEE-EEARKLLDHLKKS 53


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

 Score = 26.9 bits (60), Expect = 9.9
 Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 5/48 (10%)

Query: 3   ADSLLKMGYLLEDLGRPQDRLPPVIHIGGTNGKGSVASFSQRLLETSG 50
           A SL+ M    E    PQ +L  ++   GT GK + A F+  +L+   
Sbjct: 94  AMSLIAM----EFYDNPQHKLK-LLAFTGTKGKTTAAYFAYHILKQLH 136


  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
   0.319    0.137    0.395 

Gapped
Lambda     K      H
   0.267   0.0666    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 7,001,530
Number of extensions: 454533
Number of successful extensions: 941
Number of sequences better than 10.0: 1
Number of HSP's gapped: 926
Number of HSP's successfully gapped: 43
Length of query: 429
Length of database: 5,994,473
Length adjustment: 96
Effective length of query: 333
Effective length of database: 3,920,105
Effective search space: 1305394965
Effective search space used: 1305394965
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 (21.8 bits)
S2: 59 (26.6 bits)