RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254780971|ref|YP_003065384.1|
phosphoribosylformylglycinamidine synthase subunit I [Candidatus
Liberibacter asiaticus str. psy62]
         (219 letters)



>gnl|CDD|30396 COG0047, PurL, Phosphoribosylformylglycinamidine (FGAM) synthase,
           glutamine amidotransferase domain [Nucleotide transport
           and metabolism].
          Length = 231

 Score =  302 bits (775), Expect = 5e-83
 Identities = 115/226 (50%), Positives = 143/226 (63%), Gaps = 9/226 (3%)

Query: 1   MKTAIVQIPGLNRDNDMIKAITKIIGQSPILVWQSDTDIP-DVDLIVIPGGFSYGDYLRC 59
            K A+++ PG N D DM  A  +  G     VW SD  +  D D +V+PGGFSYGDYLR 
Sbjct: 3   PKVAVLRFPGTNCDYDMAAAF-ERAGFEAEDVWHSDLLLGRDFDGVVLPGGFSYGDYLRA 61

Query: 60  GAIAARTPVMQAIKKKAQQGIKVMGICNGFQILVELNLLPGILMRNCSLKFVCKQVLLEV 119
           GAIAA  PVM  +++ A++G  V+GICNGFQIL E  LLPG L RN SL+F C+ V L V
Sbjct: 62  GAIAAIAPVMDEVREFAEKGKPVLGICNGFQILSEAGLLPGALTRNESLRFECRWVYLRV 121

Query: 120 VNSNTAFTKSYKMNQIIKCPVAHHDGNYFIDAKGLAEIEKNNQIVFRYASG-------TN 172
            N+NT FT  Y+  ++I  PVAH +G Y+ D + LAE+E+N Q+VFRY           N
Sbjct: 122 ENNNTPFTSGYEGGEVIPIPVAHGEGRYYADDETLAELEENGQVVFRYVDNNGETEEYAN 181

Query: 173 PNGSLHDIAGVINRRGNVLGMMPHPENIIEKFHGGIDGRGLFASLL 218
           PNGS++ IAG+ N  GNVLGMMPHPE   E   GG DG  LF S  
Sbjct: 182 PNGSVNGIAGITNEDGNVLGMMPHPERASESLLGGEDGLRLFRSAR 227


>gnl|CDD|153211 cd01740, GATase1_FGAR_AT, Type 1 glutamine amidotransferase
           (GATase1)-like domain found in Formylglycinamide
           ribonucleotide amidotransferase.  Type 1 glutamine
           amidotransferase (GATase1)-like domain found in
           Formylglycinamide ribonucleotide amidotransferase
           (FGAR-AT). FGAR-AT catalyzes the ATP-dependent
           conversion of formylglycinamide ribonucleotide (FGAR)
           and glutamine to formylglycinamidine ribonucleotide
           (FGAM), ADP, Pi, and glutamate in the fourth step of the
           purine biosynthetic pathway. FGAR-AT is a glutamine
           amidotransferase. Glutamine amidotransferase activity
           catalyses the transfer of ammonia from the amide side
           chain of glutamine to an acceptor substrate. FGAR-AT
           belongs to the triad family of amidotransferases having
           a conserved Cys-His-Glu catalytic triad in the
           glutaminase active site.
          Length = 238

 Score =  264 bits (678), Expect = 1e-71
 Identities = 110/239 (46%), Positives = 147/239 (61%), Gaps = 24/239 (10%)

Query: 3   TAIVQIPGLNRDNDMIKAITKIIGQSPILVWQSDT-----DIPDVDLIVIPGGFSYGDYL 57
            A+++ PG N D DM  A     G     VW +D      D+ D D +V+PGGFSYGDYL
Sbjct: 1   VAVLRFPGSNCDRDMAYAFELA-GFEAEDVWHNDLLAGRKDLDDYDGVVLPGGFSYGDYL 59

Query: 58  RCGAIAARTP-VMQAIKKKAQQGIKVMGICNGFQILVELNLLPGILMRNCSLKFVCKQ-- 114
           R GAIAA +P +M+ +K+ A++G  V+GICNGFQILVEL LLPG L+RN  LKF+C+   
Sbjct: 60  RAGAIAAASPLLMEEVKEFAERGGLVLGICNGFQILVELGLLPGALIRNKGLKFICRWQN 119

Query: 115 --VLLEVVNSNTAFTKSYKMNQIIKCPVAHHDGNYFIDAKGLAEIEKNNQIV-FRYASGT 171
             V L V N+++ FTK Y   ++++ PVAH +G ++ D + LAE+E+N QI  +    G 
Sbjct: 120 RFVTLRVENNDSPFTKGYMEGEVLRIPVAHGEGRFYADDETLAELEENGQIAQYVDDDGN 179

Query: 172 -------NPNGSLHDIAGVINRRGNVLGMMPHPENIIE-----KFHGGIDGRGLFASLL 218
                  NPNGSL  IAG+ N  G VLGMMPHPE  +E     +  GG DG  LF + +
Sbjct: 180 VTERYPANPNGSLDGIAGICNEDGRVLGMMPHPERAVEPWQWERLLGGSDGLKLFRNAV 238


>gnl|CDD|37118 KOG1907, KOG1907, KOG1907, Phosphoribosylformylglycinamidine synthase
            [Nucleotide transport and metabolism].
          Length = 1320

 Score = 92.3 bits (229), Expect = 9e-20
 Identities = 60/226 (26%), Positives = 92/226 (40%), Gaps = 31/226 (13%)

Query: 2    KTAIVQIPGLNRDNDMIKAITKIIGQSPILVWQSDTDIPDVDL-----IVIPGGFSYGDY 56
            K AI++  G+N D +M  A     G   + V  +D       L     +   GGFSY D 
Sbjct: 1060 KVAILREEGVNGDREMAAAFYAA-GFETVDVTMTDLLAGRHHLDDFRGLAFCGGFSYADV 1118

Query: 57   LRCGA-----IAARTPVMQAIKK-KAQQGIKVMGICNGFQILVELN-LLPGI-------L 102
            L         I     V    +    +Q    +GICNG Q++  L  + P +       L
Sbjct: 1119 LGSAKGWAASILFNESVRSQFEAFFNRQDTFSLGICNGCQLMSRLGWIGPEVGKWPDVFL 1178

Query: 103  MRNCSLKFVCKQVLLEVVNSNTAFTKSYKMNQIIKCPVAHHDGN-YFIDAKGLAEIEKNN 161
              N S +F C+  ++++ ++ +          ++   VAH +G   F   + L  ++K  
Sbjct: 1179 DHNESGRFECRFGMVKIESNVSIMLSGMA-GSVLGVWVAHGEGRATFRSEQNLEHLKKEG 1237

Query: 162  QIVFRYASGT---------NPNGSLHDIAGVINRRGNVLGMMPHPE 198
             +  RY             NPNGS   IAG+ +  G  L MMPHPE
Sbjct: 1238 LVCIRYVDDYGNVTELYPFNPNGSPDGIAGICSPDGRHLAMMPHPE 1283


>gnl|CDD|153210 cd01653, GATase1, Type 1 glutamine amidotransferase
          (GATase1)-like domain.  Type 1 glutamine
          amidotransferase (GATase1)-like domain. This group
          includes proteins similar to Class I glutamine
          amidotransferases, the intracellular PH1704 from
          Pyrococcus horikoshii, the C-terminal of the large
          catalase: Escherichia coli HP-II, Sinorhizobium
          meliloti Rm1021 ThuA. and, the A4 beta-galactosidase
          middle domain.  The majority of proteins in this group
          have a reactive Cys found in the sharp turn between a
          beta strand and an alpha helix termed the nucleophile
          elbow.  For Class I glutamine amidotransferases
          proteins which transfer ammonia from the amide side
          chain of glutamine to an acceptor substrate, this Cys
          forms a Cys-His-Glu catalytic triad in the active site.
           Glutamine amidotransferases activity can be found in a
          range of biosynthetic enzymes included in this cd:
          glutamine amidotransferase, formylglycinamide
          ribonucleotide, GMP synthetase, anthranilate synthase
          component II, glutamine-dependent carbamoyl phosphate
          synthase, cytidine triphosphate synthetase,
          gamma-glutamyl hydrolase, imidazole glycerol phosphate
          synthase and, cobyric acid synthase. For Pyrococcus
          horikoshii PH1704, the Cys of the nucleophile elbow
          together with a different His and, a Glu from an
          adjacent monomer form a catalytic triad different from
          the typical GATase1 triad. The E. coli HP-II C-terminal
          domain, S.  meliloti Rm1021 ThuA and the A4
          beta-galactosidase middle domain lack the catalytic
          triad typical GATaseI domains. GATase1-like domains can
          occur either as single polypeptides, as in Class I
          glutamine amidotransferases, or as domains in a much
          larger multifunctional synthase protein, such as
          CPSase.
          Length = 115

 Score = 52.6 bits (126), Expect = 8e-08
 Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 5/60 (8%)

Query: 34 QSDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQILV 93
          +SD D+ D D +++PGG    D L          ++  +++ A  G  ++GIC G Q+LV
Sbjct: 39 ESDVDLDDYDGLILPGGPGTPDDLA-----RDEALLALLREAAAAGKPILGICLGAQLLV 93


>gnl|CDD|153222 cd03128, GAT_1, Type 1 glutamine amidotransferase (GATase1)-like
          domain.  Type 1 glutamine amidotransferase
          (GATase1)-like domain. This group contains proteins
          similar to Class I glutamine amidotransferases, the
          intracellular PH1704 from Pyrococcus horikoshii, the
          C-terminal of the large catalase: Escherichia coli
          HP-II, Sinorhizobium meliloti Rm1021 ThuA, the A4
          beta-galactosidase middle domain and peptidase E.  The
          majority of proteins in this group have a reactive Cys
          found in the sharp turn between a beta strand and an
          alpha helix termed the nucleophile elbow.  For Class I
          glutamine amidotransferases proteins which transfer
          ammonia from the amide side chain of glutamine to an
          acceptor substrate, this Cys forms a Cys-His-Glu
          catalytic triad in the active site.  Glutamine
          amidotransferases activity can be found in a range of
          biosynthetic enzymes included in this cd: glutamine
          amidotransferase, formylglycinamide ribonucleotide, GMP
          synthetase, anthranilate synthase component II,
          glutamine-dependent carbamoyl phosphate synthase
          (CPSase), cytidine triphosphate synthetase,
          gamma-glutamyl hydrolase, imidazole glycerol phosphate
          synthase and, cobyric acid synthase. For Pyrococcus
          horikoshii PH1704, the Cys of the nucleophile elbow
          together with a different His and, a Glu from an
          adjacent monomer form a catalytic triad different from
          the typical GATase1 triad. Peptidase E is believed to
          be a serine peptidase having a Ser-His-Glu catalytic
          triad which differs from the Cys-His-Glu catalytic
          triad of typical GATase1 domains, by having a Ser in
          place of the reactive Cys at the nucleophile elbow. The
          E. coli HP-II C-terminal domain, S. meliloti Rm1021
          ThuA and the A4 beta-galactosidase middle domain lack
          the catalytic triad typical GATaseI domains.
          GATase1-like domains can occur either as single
          polypeptides, as in Class I glutamine
          amidotransferases, or as domains in a much larger
          multifunctional synthase protein, such as CPSase.
          Peptidase E has a circular permutation in the common
          core of a typical GTAse1 domain.
          Length = 92

 Score = 50.7 bits (121), Expect = 3e-07
 Identities = 19/59 (32%), Positives = 31/59 (52%), Gaps = 5/59 (8%)

Query: 34 QSDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQIL 92
          +SD D+ D D +++PGG    D L          ++  +++ A  G  V+GIC G Q+L
Sbjct: 39 ESDVDLDDYDGLILPGGPGTPDDLA-----WDEALLALLREAAAAGKPVLGICLGAQLL 92


>gnl|CDD|153224 cd03130, GATase1_CobB, Type 1 glutamine amidotransferase
          (GATase1) domain found in Cobyrinic Acid a,c-Diamide
          Synthase.  Type 1 glutamine amidotransferase (GATase1)
          domain found in Cobyrinic Acid a,c-Diamide Synthase.
          CobB plays a role in cobalamin biosythesis catalyzing
          the conversion of cobyrinic acid to cobyrinic acid
          a,c-diamide.  CobB belongs to the triad family of
          amidotransferases.  Two of the three residues of the
          catalytic triad that are involved in glutamine binding,
          hydrolysis and transfer of the resulting ammonia to the
          acceptor substrate in other triad aminodotransferases
          are conserved in CobB.
          Length = 198

 Score = 47.2 bits (113), Expect = 4e-06
 Identities = 17/67 (25%), Positives = 31/67 (46%), Gaps = 7/67 (10%)

Query: 28 SPILVWQSDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICN 87
          SP+     D ++PD D + + GG+     L    ++A   + ++I+  A+ G  +   C 
Sbjct: 31 SPL----KDEELPDADGLYLGGGYP---ELFAEELSANQSMRESIRAFAESGGPIYAECG 83

Query: 88 GFQILVE 94
          G   L E
Sbjct: 84 GLMYLGE 90


>gnl|CDD|153221 cd01750, GATase1_CobQ, Type 1 glutamine amidotransferase
          (GATase1) domain found in Cobyric Acid Synthase (CobQ).
           Type 1 glutamine amidotransferase (GATase1) domain
          found in Cobyric Acid Synthase (CobQ).  CobQ plays a
          role in cobalamin biosythesis.   CobQ catalyses
          amidations at positions B, D, E, and G on
          adenosylcobyrinic A,C-diamide in the biosynthesis of
          cobalamin.  CobQ belongs to the triad family of
          amidotransferases.  Two of the three residues of the
          catalytic triad that are involved in glutamine binding,
          hydrolysis and transfer of the resulting ammonia to the
          acceptor substrate in other triad aminodotransferases
          are conserved in CobQ.
          Length = 194

 Score = 46.9 bits (112), Expect = 4e-06
 Identities = 21/58 (36%), Positives = 31/58 (53%), Gaps = 9/58 (15%)

Query: 38 DIPDVDLIVIPGGFSYG---DYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQIL 92
           + D DLI++PG         +LR   +A      +AIK  A+ G  V+GIC G+Q+L
Sbjct: 34 GLGDADLIILPGSKDTIQDLAWLRKRGLA------EAIKNYARAGGPVLGICGGYQML 85


>gnl|CDD|153219 cd01748, GATase1_IGP_Synthase, Type 1 glutamine amidotransferase
           (GATase1) domain found in imidazole glycerol phosphate
           synthase (IGPS).  Type 1 glutamine amidotransferase
           (GATase1) domain found in imidazole glycerol phosphate
           synthase (IGPS). IGPS incorporates ammonia derived from
           glutamine into
           N1-[(5'-phosphoribulosyl)-formimino]-5-aminoimidazole-4-
           carboxamide ribonucleotide (PRFAR) to form
           5'-(5-aminoimidazole-4-carboxamide) ribonucleotide
           (AICAR) and imidazole glycerol phosphate (IGP). The
           glutamine amidotransferase domain generates the ammonia
           nucleophile which is channeled from the glutaminase
           active site to the PRFAR active site. IGPS belong to the
           triad family of amidotransferases having a conserved
           Cys-His-Glu catalytic triad in the glutaminase active
           site.
          Length = 198

 Score = 44.0 bits (105), Expect = 3e-05
 Identities = 25/96 (26%), Positives = 45/96 (46%), Gaps = 15/96 (15%)

Query: 19  KAITKIIGQSPILVWQSDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQ 78
            A+ ++ G   I+      +I   D +++PG  ++GD     A      +++A+K+    
Sbjct: 16  NALERL-GAEVIIT-SDPEEILSADKLILPGVGAFGD---AMANLRERGLIEALKEAIAS 70

Query: 79  GIKVMGICNGFQILVE----------LNLLPGILMR 104
           G   +GIC G Q+L E          L L+PG ++R
Sbjct: 71  GKPFLGICLGMQLLFESSEEGGGTKGLGLIPGKVVR 106


>gnl|CDD|153228 cd03134, GATase1_PfpI_like, A type 1 glutamine amidotransferase
           (GATase1)-like domain found in PfpI from Pyrococcus
           furiosus.  A type 1 glutamine amidotransferase
           (GATase1)-like domain found in PfpI from Pyrococcus
           furiosus.   This group includes proteins similar to PfpI
           from P.  furiosus. and PH1704 from Pyrococcus
           horikoshii. These enzymes are ATP-independent
           intracellular proteases and may hydrolyze small peptides
           to provide a nutritional source.  Only Cys of the
           catalytic triad typical of GATase1 domains is conserved
           in this group. This Cys residue is found in the sharp
           turn between a beta strand and an alpha helix termed the
           nucleophile elbow.  For PH1704, it is believed that this
           Cys together with a different His in one monomer and Glu
           (from an adjacent monomer) forms a different catalytic
           triad from the typical GATase1domain.  PfpI is
           homooligomeric. Protease activity is only found for
           oligomeric forms of PH1704.
          Length = 165

 Score = 42.9 bits (102), Expect = 7e-05
 Identities = 23/67 (34%), Positives = 33/67 (49%), Gaps = 8/67 (11%)

Query: 35  SDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKK-AQQGIKVMGICNGFQILV 93
           +D D  D D +VIPGG +  D LR      R P   A  +  A+ G  V  IC+G  +L+
Sbjct: 56  ADVDADDYDALVIPGGTN-PDKLR------RDPDAVAFVRAFAEAGKPVAAICHGPWVLI 108

Query: 94  ELNLLPG 100
              ++ G
Sbjct: 109 SAGVVRG 115


>gnl|CDD|31681 COG1492, CobQ, Cobyric acid synthase [Coenzyme metabolism].
          Length = 486

 Score = 42.5 bits (100), Expect = 1e-04
 Identities = 20/61 (32%), Positives = 34/61 (55%), Gaps = 9/61 (14%)

Query: 35  SDTDIPDVDLIVIPGGFS-YGD--YLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQI 91
             +D+ D DL+++PG  +   D   LR G +       + I + A++G  V+GIC G+Q+
Sbjct: 284 PGSDLRDADLVILPGSKNTIADLKILREGGMD------EKILEYARKGGDVIGICGGYQM 337

Query: 92  L 92
           L
Sbjct: 338 L 338


>gnl|CDD|30659 COG0311, PDX2, Predicted glutamine amidotransferase involved in
           pyridoxine biosynthesis [Coenzyme metabolism].
          Length = 194

 Score = 42.1 bits (99), Expect = 1e-04
 Identities = 44/208 (21%), Positives = 80/208 (38%), Gaps = 43/208 (20%)

Query: 1   MKTAIVQIPGLNRDNDMIKAITKIIGQSPILVWQSDTDIPDVDLIVIPGGFSYGDYLRCG 60
           MK  ++ + G   ++  ++A+ K  G   + V + + D+  VD ++IPGG S       G
Sbjct: 1   MKIGVLALQGAVEEH--LEALEKAGGAEVVEVKRPE-DLEGVDGLIIPGGES----TTIG 53

Query: 61  AIAARTPVMQAIKKKAQQGIKVMGICNGFQILVELNLLPGILMRNCSLKFVCKQVLLEV- 119
            +  R  +++ +++    G+ V G C G  IL+   +L G            +Q LL + 
Sbjct: 54  RLLKRYGLLEPLREFIADGLPVFGTCAGL-ILLAKEILDGP-----------EQPLLGLL 101

Query: 120 ---VNSNT------AFTKSYKMNQIIKCPVAHHDGNYFIDAKGLAEIEKNNQIVFRYASG 170
              V  N       +F     +               FI A  + E+    +++      
Sbjct: 102 DVTVRRNAFGRQVDSFETELDIEGFGLPFPFP---AVFIRAPVIEEVGDGVEVLATLD-- 156

Query: 171 TNPNGSLHDIAGVINRRGNVLGMMPHPE 198
                    I  V  ++GN+L    HPE
Sbjct: 157 -------GRIVAV--KQGNILATSFHPE 175


>gnl|CDD|30467 COG0118, HisH, Glutamine amidotransferase [Amino acid transport and
           metabolism].
          Length = 204

 Score = 41.3 bits (97), Expect = 2e-04
 Identities = 23/90 (25%), Positives = 43/90 (47%), Gaps = 14/90 (15%)

Query: 25  IGQSPILVWQSDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMG 84
           +G   ++    + +I   D +++PG  ++G      A      +++AIK+  + G   +G
Sbjct: 24  LGAEVVVSRDPE-EILKADKLILPGVGAFGA---AMANLRERGLIEAIKEAVESGKPFLG 79

Query: 85  ICNGFQILVE----------LNLLPGILMR 104
           IC G Q+L E          L L+PG ++R
Sbjct: 80  ICLGMQLLFERSEEGGGVKGLGLIPGKVVR 109


>gnl|CDD|153230 cd03136, GATase1_AraC_ArgR_like, AraC transcriptional regulators
           having an N-terminal Type 1 glutamine amidotransferase
           (GATase1)-like domain.  A subgroup of AraC
           transcriptional regulators having an N-terminal Type 1
           glutamine amidotransferase (GATase1)-like domain.  This
           group contains proteins similar to the Pseudomonas
           aeruginosa ArgR regulator.  ArgR functions in the
           control of expression of certain genes of arginine
           biosynthesis and catabolism. AraC regulators are defined
           by a AraC-type helix-turn-helix DNA binding domain at
           their C-terminal.  AraC family transcriptional
           regulators are widespread among bacteria and are
           involved in regulating diverse and important biological
           functions, including carbon metabolism, stress responses
           and virulence in different microorganisms. The catalytic
           triad typical of GATase1 domains is not conserved in
           this GATase1-like domain. However, in common with
           typical GATase1domains a reactive cys residue is found
           in some sequences in the sharp turn between a beta
           strand and an alpha helix termed the nucleophile elbow.
          Length = 185

 Score = 41.0 bits (97), Expect = 3e-04
 Identities = 16/80 (20%), Positives = 33/80 (41%), Gaps = 10/80 (12%)

Query: 29  PILVWQSDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNG 88
            +    +  D P +D + + GG            A    ++  +++ A++G+ + GI  G
Sbjct: 52  RVAPDAALEDAPPLDYLFVVGGLG-------ARRAVTPALLAWLRRAARRGVALGGIDTG 104

Query: 89  FQILVELNLLPGILMRNCSL 108
             +L    LL G   R  ++
Sbjct: 105 AFLLARAGLLDG---RRATV 121


>gnl|CDD|31982 COG1797, CobB, Cobyrinic acid a,c-diamide synthase [Coenzyme
           metabolism].
          Length = 451

 Score = 40.6 bits (95), Expect = 3e-04
 Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 8/68 (11%)

Query: 28  SPILVWQSDTDIP-DVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGIC 86
           SP+    +D ++P DVD + + GG+     L    ++A   + +AIK  A  G  +   C
Sbjct: 278 SPL----ADEELPPDVDAVYLGGGYPE---LFAEELSANESMRRAIKAFAAAGKPIYAEC 330

Query: 87  NGFQILVE 94
            G   L E
Sbjct: 331 GGLMYLGE 338


>gnl|CDD|145245 pfam01965, DJ-1_PfpI, DJ-1/PfpI family.  The family includes the
           protease PfpI. This domain is also found in
           transcriptional regulators.
          Length = 141

 Score = 40.0 bits (94), Expect = 5e-04
 Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 5/66 (7%)

Query: 35  SDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQILVE 94
            D +  D D +VIPGG +  + LR         +++ +K+  + G  +  IC+G  +L  
Sbjct: 28  DDVNADDYDALVIPGGHAAAEDLR-----DDEKLVKFVKEFYEAGKPIAAICHGPVLLAA 82

Query: 95  LNLLPG 100
             LL G
Sbjct: 83  AGLLKG 88


>gnl|CDD|143892 pfam00117, GATase, Glutamine amidotransferase class-I. 
          Length = 187

 Score = 39.6 bits (93), Expect = 6e-04
 Identities = 17/75 (22%), Positives = 30/75 (40%), Gaps = 13/75 (17%)

Query: 25 IGQSPILVWQSDTD-----IPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQG 79
          +G    +V           + + D I+I  G         G+       ++AIK+  +  
Sbjct: 20 LGVEVEVVPNDTPAEEILELLNPDGIIISPGP--------GSPGDAGGAIEAIKELRENK 71

Query: 80 IKVMGICNGFQILVE 94
          I ++GIC G Q+L  
Sbjct: 72 IPILGICLGHQLLAL 86


>gnl|CDD|35842 KOG0623, KOG0623, KOG0623, Glutamine amidotransferase/cyclase
           [Amino acid transport and metabolism].
          Length = 541

 Score = 38.5 bits (89), Expect = 0.001
 Identities = 41/188 (21%), Positives = 76/188 (40%), Gaps = 32/188 (17%)

Query: 34  QSDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQILV 93
           Q+  DI + D ++ PG  ++G  +    +  RT   + ++K  + G   MGIC G Q L 
Sbjct: 32  QTPGDILNADRLIFPGVGNFGPAMD---VLNRTGFAEPLRKYIESGKPFMGICVGLQALF 88

Query: 94  E----------LNLLPGILMRNCSLKFVCKQVLLEVVNSNTAFTKSYKMNQIIKCPVAHH 143
           +          L ++PGI+ R     F     ++  +  N+    S   ++        +
Sbjct: 89  DGSVENPPSKGLGVIPGIVGR-----FDASAKIVPHIGWNSCQVGS--DSEFFG--DVPN 139

Query: 144 DGNYFIDAKGLAEIEKNNQIVFRYASGTNPNGSLHDIAGVINRRGNVLGMMPHPE----- 198
              YF+ +    E  K+ +    +   T   GS   I+ +  R+ NV     HPE     
Sbjct: 140 RHVYFVHSYLNREKPKSLENK-DWKIATCKYGSESFISAI--RKNNVHATQFHPEKSGEA 196

Query: 199 --NIIEKF 204
             +++ +F
Sbjct: 197 GLSVLRRF 204


>gnl|CDD|153212 cd01741, GATase1_1, Subgroup of proteins having the Type 1
          glutamine amidotransferase (GATase1) domain.  This
          group contains a subgroup of proteins having the Type 1
          glutamine amidotransferase (GATase1) domain. GATase
          activity catalyses the transfer of ammonia from the
          amide side chain of glutamine to an acceptor substrate.
          Glutamine amidotransferases (GATase) includes the triad
          family of amidotransferases which have a conserved
          Cys-His-Glu catalytic triad in the glutaminase active
          site. In this subgroup this triad is conserved. GATase
          activity can be found in a range of biosynthetic
          enzymes, including: glutamine amidotransferase,
          formylglycinamide ribonucleotide, GMP synthetase ,
          anthranilate synthase component II, glutamine-dependent
          carbamoyl phosphate synthase, cytidine triphosphate
          synthetase, gamma-glutamyl hydrolase, imidazole
          glycerol phosphate synthase and, cobyric acid synthase.
          Glutamine amidotransferase (GATase) domains can occur
          either as single polypeptides, as in glutamine
          amidotransferases, or as domains in a much larger
          multifunctional synthase protein, such as CPSase.
          Length = 188

 Score = 37.6 bits (88), Expect = 0.003
 Identities = 17/61 (27%), Positives = 25/61 (40%), Gaps = 11/61 (18%)

Query: 38 DIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQA----IKKKAQQGIKVMGICNGFQILV 93
          D+ D D +VI GG                P ++     I++    G  V+GIC G Q+L 
Sbjct: 43 DLDDYDGLVILGGPM-------SVDEDDYPWLKKLKELIRQALAAGKPVLGICLGHQLLA 95

Query: 94 E 94
           
Sbjct: 96 R 96


>gnl|CDD|153231 cd03137, GATase1_AraC_1, AraC transcriptional regulators having a
           Type 1 glutamine amidotransferase (GATase1)-like domain.
            A subgroup of AraC transcriptional regulators having a
           Type 1 glutamine amidotransferase (GATase1)-like domain.
            AraC regulators are defined by a AraC-type
           helix-turn-helix DNA binding domain at their C-terminal.
            AraC family transcriptional regulators are widespread
           among bacteria and are involved in regulating diverse
           and important biological functions, including carbon
           metabolism, stress responses and virulence in different
           microorganisms. The catalytic triad typical of GATase1
           domains is not conserved in this GATase1-like domain.
           However, in common with typical GATase1domains a
           reactive cys residue is found in the sharp turn between
           a beta strand and an alpha helix termed the nucleophile
           elbow.
          Length = 187

 Score = 37.1 bits (87), Expect = 0.004
 Identities = 15/61 (24%), Positives = 27/61 (44%), Gaps = 6/61 (9%)

Query: 40  PDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQILVELNLLP 99
              D +++PGG                 ++ A+++ A +G +V  +C G  +L E  LL 
Sbjct: 63  AAADTVIVPGGPDV------DGRPPPPALLAALRRAAARGARVASVCTGAFVLAEAGLLD 116

Query: 100 G 100
           G
Sbjct: 117 G 117


>gnl|CDD|153233 cd03139, GATase1_PfpI_2, Type 1 glutamine amidotransferase
           (GATase1)-like domain found in a subgroup of proteins
           similar to PfpI from Pyrococcus furiosus.  Type 1
           glutamine amidotransferase (GATase1)-like domain found
           in a subgroup of proteins similar to PfpI from
           Pyrococcus furiosus.   PfpI is an ATP-independent
           intracellular proteases which may hydrolyze small
           peptides to provide a nutritional source.  Only Cys of
           the catalytic triad typical of GATase1 domains is
           conserved in this group. This Cys residue is found in
           the sharp turn between a beta strand and an alpha helix
           termed the nucleophile elbow.
          Length = 183

 Score = 36.4 bits (85), Expect = 0.006
 Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 6/54 (11%)

Query: 35  SDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNG 88
           S  D PD+D++++PGG   G      A+     ++  I+++A +   V  +C G
Sbjct: 56  SFADPPDLDVLLVPGG--GGTR----ALVNDPALLDFIRRQAARAKYVTSVCTG 103


>gnl|CDD|153229 cd03135, GATase1_DJ-1, Type 1 glutamine amidotransferase
           (GATase1)-like domain found in Human DJ-1.  Type 1
           glutamine amidotransferase (GATase1)-like domain found
           in Human DJ-1. DJ-1 is involved in multiple
           physiological processes including cancer, Parkinson's
           disease and male fertility. It is unclear how DJ-1
           functions in these. DJ-1 has been shown to possess
           chaperone activity. DJ-1 is preferentially expressed in
           the testis and moderately in other tissues; it is
           induced together with genes involved in oxidative stress
           response. The Drosophila homologue (DJ-1A) plays an
           essential role in oxidative stress response and neuronal
           maintenance. Inhibition of DJ-1A function through RNAi,
           results in the cellular accumulation of reactive oxygen
           species, organismal hypersensitivity to oxidative
           stress, and dysfunction and degeneration of dopaminergic
           and photoreceptor neurons.  DJ-1 has lacks enzymatic
           activity and the catalytic triad of typical GATase1
           domains, however it does contain the highly conserved
           cysteine located at the nucelophile elbow region typical
           of these domains. This cysteine been proposed to be a
           site of regulation of DJ-1 activity by oxidation.  DJ-1
           is a dimeric enzyme.
          Length = 163

 Score = 35.6 bits (83), Expect = 0.011
 Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 5/66 (7%)

Query: 35  SDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQILVE 94
           SD ++ D D IVIPGG      L          +++ +K+   +G  +  IC    +L +
Sbjct: 54  SDVNLDDYDAIVIPGGLPGAQNLA-----DNEKLIKLLKEFNAKGKLIAAICAAPAVLAK 108

Query: 95  LNLLPG 100
             LL G
Sbjct: 109 AGLLKG 114


>gnl|CDD|31037 COG0693, ThiJ, Putative intracellular protease/amidase [General
           function prediction only].
          Length = 188

 Score = 35.1 bits (80), Expect = 0.015
 Identities = 20/64 (31%), Positives = 28/64 (43%), Gaps = 5/64 (7%)

Query: 35  SDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQILVE 94
            D D  D D +VIPGG    +YLR         ++  ++     G  V  IC+G  +L  
Sbjct: 60  DDADAADYDALVIPGGDHGPEYLR-----PDPDLLAFVRDFYANGKPVAAICHGPAVLAA 114

Query: 95  LNLL 98
             LL
Sbjct: 115 AGLL 118


>gnl|CDD|153220 cd01749, GATase1_PB, Glutamine Amidotransferase (GATase_I)
          involved in pyridoxine biosynthesis.  Glutamine
          Amidotransferase (GATase_I) involved in pyridoxine
          biosynthesis. Glutamine amidotransferase (GATase)
          activity involves the removal of the ammonia group from
          a glutamate molecule and its subsequent transfer to a
          specific substrate, thus creating a new carbon-nitrogen
          group on the substrate.  This group contains proteins
          like Bacillus subtilus YaaE  and Plasmodium falciparum
          Pdx2 which are members of the triad glutamine
          aminotransferase family and function in a pathway for
          the biosynthesis of vitamin B6.
          Length = 183

 Score = 34.4 bits (80), Expect = 0.025
 Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 11/69 (15%)

Query: 23 KIIGQSPILVWQSDTDIPDVDLIVIPGGFSYGDYLRCGAI---AARTPVMQAIKKKAQQG 79
          + +G   I V   + D+  +D ++IPGG S         I     RT ++  +++  + G
Sbjct: 18 ERLGVEVIEVRTPE-DLEGIDGLIIPGGES-------TTIGKLLRRTGLLDPLREFIRAG 69

Query: 80 IKVMGICNG 88
            V G C G
Sbjct: 70 KPVFGTCAG 78


>gnl|CDD|30850 COG0504, PyrG, CTP synthase (UTP-ammonia lyase) [Nucleotide
           transport and metabolism].
          Length = 533

 Score = 34.3 bits (79), Expect = 0.028
 Identities = 20/54 (37%), Positives = 26/54 (48%), Gaps = 9/54 (16%)

Query: 40  PDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQILV 93
             VD I++PGGF Y      G IAA       I+   +  I  +GIC G Q+ V
Sbjct: 342 KLVDGILVPGGFGYRGVE--GKIAA-------IRYARENNIPFLGICLGMQLAV 386


>gnl|CDD|153243 cd03169, GATase1_PfpI_1, Type 1 glutamine amidotransferase
           (GATase1)-like domain found in a subgroup of proteins
           similar to PfpI from Pyrococcus furiosus.  Type 1
           glutamine amidotransferase (GATase1)-like domain found
           in a subgroup of proteins similar to PfpI from
           Pyrococcus furiosus.   PfpI is an ATP-independent
           intracellular proteases which may hydrolyze small
           peptides to provide a nutritional source.  Only Cys of
           the catalytic triad typical of GATase1 domains is
           conserved in this group. This Cys residue is found in
           the sharp turn between a beta strand and an alpha helix
           termed the nucleophile elbow.
          Length = 180

 Score = 33.4 bits (77), Expect = 0.051
 Identities = 26/79 (32%), Positives = 37/79 (46%), Gaps = 9/79 (11%)

Query: 35  SDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQILVE 94
            + D  D D +VIPGG +  +YLR         V+  ++  A+    V  IC+G QIL  
Sbjct: 70  DEVDPDDYDALVIPGGRA-PEYLR-----LDEKVLAIVRHFAEANKPVAAICHGPQILAA 123

Query: 95  LNLLPGILMRNCSLKFVCK 113
             +L G   R C+    CK
Sbjct: 124 AGVLKG---RRCTAYPACK 139


>gnl|CDD|153217 cd01746, GATase1_CTP_Synthase, Type 1 glutamine amidotransferase
          (GATase1) domain found in Cytidine Triphosphate
          Synthetase.  Type 1 glutamine amidotransferase
          (GATase1) domain found in Cytidine Triphosphate
          Synthetase (CTP). CTP is involved in pyrimidine
          ribonucleotide/ribonucleoside metabolism. CTPs produce
          CTP from UTP and glutamine and regulate intracellular
          CTP levels through interactions with four
          ribonucleotide triphosphates. The enzyme exists as a
          dimer of identical chains that aggregates as a
          tetramer. CTP is derived form UTP in three separate
          steps involving two active sites. In one active site,
          the UTP O4 oxygen is activated by Mg-ATP-dependent
          phosphorylation, followed by displacement of the
          resulting 4-phosphate moiety by ammonia. At a separate
          site, ammonia is generated via rate limiting glutamine
          hydrolysis (glutaminase) activity. A gated channel that
          spans between the glutamine hydrolysis and amidoligase
          active sites provides a path for ammonia diffusion.
          CTPs belong to the triad family of amidotransferases
          having a conserved Cys-His-Glu catalytic triad in the
          glutaminase active site.
          Length = 235

 Score = 32.5 bits (75), Expect = 0.097
 Identities = 19/76 (25%), Positives = 27/76 (35%), Gaps = 26/76 (34%)

Query: 31 LVWQSDTDIP---------DVDLIVIPGGFSY----GDYLRCGAIAARTPVMQAIKKKAQ 77
          + W    D+            D I++PGGF      G              + AIK   +
Sbjct: 36 IKWIDSEDLEEENAEEALKGADGILVPGGFGIRGVEG-------------KILAIKYARE 82

Query: 78 QGIKVMGICNGFQILV 93
            I  +GIC G Q+ V
Sbjct: 83 NNIPFLGICLGMQLAV 98


>gnl|CDD|153215 cd01744, GATase1_CPSase, Small chain of the glutamine-dependent
          form of carbamoyl phosphate synthase, CPSase II.  This
          group of sequences represents the small chain of the
          glutamine-dependent form of carbamoyl phosphate
          synthase, CPSase II.  CPSase II catalyzes the
          production of carbomyl phosphate (CP) from bicarbonate,
          glutamine and two molecules of MgATP. The reaction is
          believed to proceed by a series of four biochemical
          reactions involving a minimum of three discrete highly
          reactive intermediates. The synthesis of CP is critical
          for the initiation of two separate biosynthetic
          pathways. In one CP is coupled to aspartate, its carbon
          and nitrogen nuclei ultimately incorporated into the
          aromatic moieties of pyrimidine nucleotides. In the
          second pathway CP is condensed with ornithine at the
          start of the urea cycle and is utilized for the
          detoxification of ammonia and biosynthesis of arginine.
          CPSases may be encoded by one or by several genes,
          depending on the species.  The E.coli enzyme is a
          heterodimer consisting of two polypeptide chains
          referred to as the small and large subunit. Ammonia an
          intermediate during the biosynthesis of carbomyl
          phosphate produced by the hydrolysis of glutamine in
          the small subunit of the enzyme is delivered via a
          molecular tunnel between the remotely located
          carboxyphosphate active site in the large subunit.
          CPSase IIs belong to the triad family of
          amidotransferases having a conserved Cys-His-Glu
          catalytic triad in the glutaminase active site. This
          group also contains the sequence from the mammalian
          urea cycle form which has lost the active site Cys,
          resulting in an ammonia-dependent form, CPSase I.
          Length = 178

 Score = 32.5 bits (75), Expect = 0.097
 Identities = 13/63 (20%), Positives = 25/63 (39%), Gaps = 11/63 (17%)

Query: 41 DVDLIVIPGGFSYGDYLRC-----------GAIAARTPVMQAIKKKAQQGIKVMGICNGF 89
            ++ V+P      + L+            G  A     ++ ++K   + I + GIC G 
Sbjct: 20 GCEVTVVPYNTDAEEILKLDPDGIFLSNGPGDPALLDEAIKTVRKLLGKKIPIFGICLGH 79

Query: 90 QIL 92
          Q+L
Sbjct: 80 QLL 82


>gnl|CDD|153232 cd03138, GATase1_AraC_2, AraC transcriptional regulators having a
           Type 1 glutamine amidotransferase (GATase1)-like domain.
            A subgroup of AraC transcriptional regulators having a
           Type 1 glutamine amidotransferase (GATase1)-like domain.
            AraC regulators are defined by a AraC-type
           helix-turn-helix DNA binding domain at their C-terminal.
            AraC family transcriptional regulators are widespread
           among bacteria and are involved in regulating diverse
           and important biological functions, including carbon
           metabolism, stress responses and virulence in different
           microorganisms. The catalytic triad typical of GATase1
           domains is not conserved in this GATase1-like domain.
           However, in common with typical GATase1domains a
           reactive cys residue is found in the sharp turn between
           a beta strand and an alpha helix termed the nucleophile
           elbow.
          Length = 195

 Score = 32.2 bits (74), Expect = 0.12
 Identities = 19/82 (23%), Positives = 33/82 (40%), Gaps = 3/82 (3%)

Query: 19  KAITKIIGQSPILVWQSDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQ 78
                + G   IL   +  D+P  DL+++P G           +A    ++  ++++   
Sbjct: 47  GGPVLLAGGILILPDATLADVPAPDLVIVP-GLGGDP--DELLLADNPALIAWLRRQHAN 103

Query: 79  GIKVMGICNGFQILVELNLLPG 100
           G  V   C G  +L E  LL G
Sbjct: 104 GATVAAACTGVFLLAEAGLLDG 125


>gnl|CDD|37598 KOG2387, KOG2387, KOG2387, CTP synthase (UTP-ammonia lyase)
           [Nucleotide transport and metabolism].
          Length = 585

 Score = 31.0 bits (70), Expect = 0.28
 Identities = 21/61 (34%), Positives = 27/61 (44%), Gaps = 12/61 (19%)

Query: 33  WQSDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQIL 92
           WQ    +   D I++PGGF  GD    G I        A K   +  I  +GIC G Q+ 
Sbjct: 358 WQK---LKSADGILVPGGF--GDRGVEGKI-------LAAKWARENKIPFLGICLGMQLA 405

Query: 93  V 93
           V
Sbjct: 406 V 406


>gnl|CDD|32254 COG2071, COG2071, Predicted glutamine amidotransferases [General
           function prediction only].
          Length = 243

 Score = 30.3 bits (68), Expect = 0.47
 Identities = 16/75 (21%), Positives = 31/75 (41%), Gaps = 11/75 (14%)

Query: 29  PILVWQSDTD--IPDVDLIVIPGGFSYGDYLRCGAIAARTPV---------MQAIKKKAQ 77
           P L    D    +  +D +++ GG +    L     + +            +  I+   +
Sbjct: 46  PALEDPEDARQYLDLIDGLILTGGSNVDPSLYGEEPSEKDGPYDPERDAFELALIRAALE 105

Query: 78  QGIKVMGICNGFQIL 92
           +GI ++GIC G Q+L
Sbjct: 106 RGIPILGICRGLQLL 120


>gnl|CDD|153234 cd03140, GATase1_PfpI_3, Type 1 glutamine amidotransferase
           (GATase1)-like domain found in a subgroup of proteins
           similar to PfpI from Pyrococcus furiosus.  Type 1
           glutamine amidotransferase (GATase1)-like domain found
           in a subgroup of proteins similar to PfpI from
           Pyrococcus furiosus.   PfpI is an ATP-independent
           intracellular proteases which may hydrolyze small
           peptides to provide a nutritional source.  Only Cys of
           the catalytic triad typical of GATase1 domains is
           conserved in this group. This Cys residue is found in
           the sharp turn between a beta strand and an alpha helix
           termed the nucleophile elbow.
          Length = 170

 Score = 29.9 bits (68), Expect = 0.55
 Identities = 13/56 (23%), Positives = 23/56 (41%), Gaps = 11/56 (19%)

Query: 35  SDTDIPDVDLIVIPGGFSY--GDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNG 88
            D    D DL+++PGG S+   +            +   +++  +QG  V  IC  
Sbjct: 54  DDLPPEDYDLLILPGGDSWDNPEA---------PDLAGLVRQALKQGKPVAAICGA 100


>gnl|CDD|133630 CHL00188, hisH, imidazole glycerol phosphate synthase subunit
          hisH; Provisional.
          Length = 210

 Score = 29.1 bits (65), Expect = 1.1
 Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 7/77 (9%)

Query: 19 KAITKIIGQSPILVWQSDTDIPDVDLIVIPGGFSYGDYL-RCGAIAARTPVMQAIKKKAQ 77
          +AI +  GQ P ++  S++++  V  +V+PG  S+   + +       TP+ + I     
Sbjct: 19 RAIQQA-GQQPCII-NSESELAQVHALVLPGVGSFDLAMKKLEKKGLITPIKKWI----A 72

Query: 78 QGIKVMGICNGFQILVE 94
          +G   +GIC G  +L E
Sbjct: 73 EGNPFIGICLGLHLLFE 89


>gnl|CDD|33965 COG4242, CphB, Cyanophycinase and related exopeptidases [Secondary
           metabolites biosynthesis, transport, and catabolism /
           Inorganic ion transport and metabolism].
          Length = 293

 Score = 28.8 bits (64), Expect = 1.1
 Identities = 15/42 (35%), Positives = 24/42 (57%)

Query: 51  FSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQIL 92
           F+ GD LR       TP+M AI+++ ++GI V G   G  ++
Sbjct: 112 FTGGDQLRIIGSLKDTPLMAAIRQRVRRGIAVGGTSAGAAVM 153


>gnl|CDD|33246 COG3442, COG3442, Predicted glutamine amidotransferase [General
           function prediction only].
          Length = 250

 Score = 28.7 bits (64), Expect = 1.3
 Identities = 13/58 (22%), Positives = 22/58 (37%), Gaps = 3/58 (5%)

Query: 35  SDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQIL 92
                   DL  + GG  Y   +    +  +      +K   + G  V+ IC G+Q+L
Sbjct: 46  DTFPDDSYDLYFLGGGQDYEQEIATRDLLTKKE---GLKDAIENGKPVLAICGGYQLL 100


>gnl|CDD|153216 cd01745, GATase1_2, Subgroup of proteins having the Type 1
           glutamine amidotransferase (GATase1) domain.  This group
           contains a subgroup of proteins having the Type 1
           glutamine amidotransferase (GATase1) domain. GATase
           activity catalyses the transfer of ammonia from the
           amide side chain of glutamine to an acceptor substrate.
           Glutamine amidotransferases (GATase) includes the triad
           family of amidotransferases which have a conserved
           Cys-His-Glu catalytic triad in the glutaminase active
           site. In this subgroup this triad is conserved. GATase
           activity can be found in a range of biosynthetic
           enzymes, including: glutamine amidotransferase,
           formylglycinamide ribonucleotide, GMP synthetase ,
           anthranilate synthase component II, glutamine-dependent
           carbamoyl phosphate synthase, cytidine triphosphate
           synthetase, gamma-glutamyl hydrolase, imidazole glycerol
           phosphate synthase and, cobyric acid synthase. Glutamine
           amidotransferase (GATase) domains can occur either as
           single polypeptides, as in glutamine amidotransferases,
           or as domains in a much larger multifunctional synthase
           protein, such as CPSase.
          Length = 189

 Score = 28.3 bits (64), Expect = 1.7
 Identities = 7/24 (29%), Positives = 15/24 (62%)

Query: 69  MQAIKKKAQQGIKVMGICNGFQIL 92
           +  ++   ++G  ++GIC G Q+L
Sbjct: 90  LALLRAALERGKPILGICRGMQLL 113


>gnl|CDD|31362 COG1168, MalY, Bifunctional PLP-dependent enzyme with
           beta-cystathionase and maltose regulon repressor
           activities [Amino acid transport and metabolism].
          Length = 388

 Score = 27.9 bits (62), Expect = 2.2
 Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 3/57 (5%)

Query: 126 FTKSYKMN--QIIKCPVAHHDGNYFIDAKGL-AEIEKNNQIVFRYASGTNPNGSLHD 179
           F  + K+N  ++I+ P+   DG Y ID   L          +F   +  NP G +  
Sbjct: 120 FYNAIKLNGRKVIENPLVEDDGRYEIDFDALEKAFVDERVKLFILCNPHNPTGRVWT 176


>gnl|CDD|133128 cd06597, GH31_transferase_CtsY, CtsY (cyclic
           tetrasaccharide-synthesizing enzyme Y) is a bacterial
           3-alpha-isomaltosyltransferase, first identified in
           Arthrobacter globiformis, that produces cyclic
           tetrasaccharides together with a closely related enzyme
           CtsZ. CtsY and CtsZ both have a glycosyl hydrolase
           family 31 (GH31) catalytic domain.  All GH31 enzymes
           cleave a terminal carbohydrate moiety from a substrate
           that varies considerably in size, depending on the
           enzyme, and may be either a starch or a glycoprotein.
          Length = 340

 Score = 27.9 bits (62), Expect = 2.4
 Identities = 16/51 (31%), Positives = 20/51 (39%), Gaps = 18/51 (35%)

Query: 26  GQSPILVWQSDTDIPDVDLIVIPGGFSYGD------YLRCGAIAARTPVMQ 70
             S I  W  D             GF+ GD      Y+R  A+AA  P+MQ
Sbjct: 268 SASGIPYWGWDL-----------AGFT-GDVPTAELYVRSTAMAAFVPIMQ 306


>gnl|CDD|35722 KOG0501, KOG0501, KOG0501, K+-channel KCNQ [Inorganic ion transport
           and metabolism].
          Length = 971

 Score = 27.7 bits (61), Expect = 2.6
 Identities = 11/37 (29%), Positives = 19/37 (51%)

Query: 106 CSLKFVCKQVLLEVVNSNTAFTKSYKMNQIIKCPVAH 142
           C L  + +  LL+V++  TAF  S+  N  +   + H
Sbjct: 641 CDLHMIKRDKLLKVLDFYTAFANSFARNLTLTYNLRH 677


>gnl|CDD|35591 KOG0370, KOG0370, KOG0370, Multifunctional pyrimidine synthesis
           protein CAD (includes carbamoyl-phophate synthetase,
           aspartate transcarbamylase, and glutamine
           amidotransferase) [General function prediction only].
          Length = 1435

 Score = 27.6 bits (61), Expect = 2.6
 Identities = 14/78 (17%), Positives = 31/78 (39%), Gaps = 8/78 (10%)

Query: 15  NDMIKAITKIIGQSPILVWQSDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKK 74
            + I+ + K   +  ++ W       + D + +  G         G       ++Q +++
Sbjct: 184 YNQIRCLVKRGAEVTVVPWDYPIAKEEYDGLFLSNG--------PGDPELCPLLVQNVRE 235

Query: 75  KAQQGIKVMGICNGFQIL 92
             +  + V GIC G Q+L
Sbjct: 236 LLESNVPVFGICLGHQLL 253


>gnl|CDD|37975 KOG2764, KOG2764, KOG2764, Putative transcriptional regulator DJ-1
           [General function prediction only, Defense mechanisms].
          Length = 247

 Score = 26.8 bits (59), Expect = 4.2
 Identities = 13/54 (24%), Positives = 24/54 (44%), Gaps = 5/54 (9%)

Query: 35  SDTDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNG 88
            D      D+I++PGG    + L     +    V+  +K++A+ G  +  IC  
Sbjct: 61  FDVVDSKYDVIILPGGLPGAETL-----SECEKVVDLVKEQAESGKLIAAICAA 109


>gnl|CDD|30864 COG0518, GuaA, GMP synthase - Glutamine amidotransferase domain
          [Nucleotide transport and metabolism].
          Length = 198

 Score = 27.1 bits (60), Expect = 4.3
 Identities = 16/61 (26%), Positives = 23/61 (37%), Gaps = 12/61 (19%)

Query: 38 DIPDVDLIVIPGG----FSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQILV 93
           +   D I+I GG    +    +L              IK     G  V+GIC G Q+L 
Sbjct: 42 PLDSPDGIIISGGPMSVYDEDPWLP--------REKDLIKDAGVPGKPVLGICLGHQLLA 93

Query: 94 E 94
          +
Sbjct: 94 K 94


>gnl|CDD|39177 KOG3974, KOG3974, KOG3974, Predicted sugar kinase [Carbohydrate
           transport and metabolism].
          Length = 306

 Score = 26.8 bits (59), Expect = 4.7
 Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 6/40 (15%)

Query: 3   TAIVQIPGLNRDNDMIKAITKIIGQSPILVWQSDTDIPDV 42
            A+V  PGL RD  ++K I KI+            D+P V
Sbjct: 103 HAVVIGPGLGRDPAILKEIAKILEYL------RGKDVPLV 136


>gnl|CDD|153214 cd01743, GATase1_Anthranilate_Synthase, Type 1 glutamine
          amidotransferase (GATase1) domain found in Anthranilate
          synthase.  Type 1 glutamine amidotransferase (GATase1)
          domain found in Anthranilate synthase (ASase). This
          group contains proteins similar to para-aminobenzoate
          (PABA) synthase and ASase.  These enzymes catalyze
          similar reactions and produce similar products, PABA
          and ortho-aminobenzoate (anthranilate). Each enzyme is
          composed of non-identical subunits: a glutamine
          amidotransferase subunit (component II) and a subunit
          that produces an aminobenzoate products (component I).
          ASase catalyses the synthesis of anthranilate from
          chorismate and glutamine and is a tetrameric protein
          comprising two copies each of components I and II.
          Component II of ASase belongs to the family of triad
          GTases which hydrolyze glutamine and transfer nascent
          ammonia between the active sites. In some bacteria,
          such as Escherichia coli, component II can be much
          larger than in other organisms, due to the presence of
          phosphoribosyl-anthranilate transferase (PRTase)
          activity. PRTase catalyses the second step in
          tryptophan biosynthesis and results in the addition of
          5-phosphoribosyl-1-pyrophosphate to anthranilate to
          create N-5'-phosphoribosyl-anthranilate.  In E.coli,
          the first step in the conversion of chorismate to PABA
          involves two proteins: PabA and PabB which co-operate
          to transfer the amide nitrogen of glutamine to
          chorismate forming 4-amino-4 deoxychorismate (ADC).
          PabA acts as a glutamine amidotransferase, supplying an
          amino group to PabB, which carries out the amination
          reaction. A third protein PabC then mediates
          elimination of pyruvate and aromatization to give PABA.
          Several organisms have bipartite proteins containing
          fused domains homologous to PabA and PabB commonly
          called PABA synthases. These hybrid PABA synthases may
          produce ADC and not PABA.
          Length = 184

 Score = 26.7 bits (60), Expect = 4.8
 Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 11/58 (18%)

Query: 38 DIPDVDLIVI-PGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGICNGFQILVE 94
          ++ + D IVI PG    G             +   I +     + ++G+C G Q + E
Sbjct: 39 ELLNPDAIVISPG---PGH-------PEDAGISLEIIRALAGKVPILGVCLGHQAIAE 86


>gnl|CDD|31240 COG1038, PycA, Pyruvate carboxylase [Energy production and
           conversion].
          Length = 1149

 Score = 26.8 bits (59), Expect = 5.0
 Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 5/37 (13%)

Query: 186 RRGNVLGMMPHPENIIEKF-----HGGIDGRGLFASL 217
           R  N +G   +P+N+I +F       GID   +F SL
Sbjct: 617 RGANGVGYKNYPDNVIREFVKQAAKSGIDVFRIFDSL 653


>gnl|CDD|30851 COG0505, CarA, Carbamoylphosphate synthase small subunit [Amino
           acid transport and metabolism / Nucleotide transport and
           metabolism].
          Length = 368

 Score = 26.7 bits (59), Expect = 5.1
 Identities = 9/27 (33%), Positives = 14/27 (51%)

Query: 66  TPVMQAIKKKAQQGIKVMGICNGFQIL 92
              ++ IK+     I + GIC G Q+L
Sbjct: 237 DYAIETIKELLGTKIPIFGICLGHQLL 263


>gnl|CDD|153223 cd03129, GAT1_Peptidase_E_like, Type 1 glutamine amidotransferase
           (GATase1)-like domain found in peptidase E_like
           proteins.  Type 1 glutamine amidotransferase
           (GATase1)-like domain found in peptidase E_like
           proteins. This group contains proteins similar to the
           aspartyl dipeptidases Salmonella typhimurium peptidase E
           and Xenopus laevis peptidase E and, extracellular
           cyanophycinases from Pseudomonas anguilliseptica BI
           (CphE) and Synechocystis sp. PCC 6803 CphB. In bacteria
           peptidase E is believed to play a role in degrading
           peptides generated by intracellular protein breakdown or
           imported into the cell as nutrient sources. Peptidase E
           uniquely hydrolyses only Asp-X dipeptides (where X is
           any amino acid), and one tripeptide Asp-Gly-Gly.
           Cyanophycinases are intracellular exopeptidases which
           hydrolyze the polymer cyanophycin (multi
           L-arginyl-poly-L-aspartic acid) to the dipeptide
           beta-Asp-Arg. Peptidase E and cyanophycinases are
           thought to have a Ser-His-Glu catalytic triad which
           differs from the Cys-His-Glu catalytic triad typical of
           GATase1 domains by having a Ser in place of the reactive
           Cys at the nucleophile elbow. Xenopus peptidase E is
           developmentally regulated in response to thyroid hormone
           and, it is thought to play a role in apoptosis during
           tail reabsorption.
          Length = 210

 Score = 26.9 bits (60), Expect = 5.1
 Identities = 19/81 (23%), Positives = 32/81 (39%), Gaps = 23/81 (28%)

Query: 41  DVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGI--------------C 86
           + D I + GG    + LR  ++   TP++ AI K+  +G+ + G                
Sbjct: 80  EADGIFVGGG----NQLRLLSVLRETPLLDAILKRVARGVVIGGTSAGAAVMGETGIGTT 135

Query: 87  NGFQILVE-----LNLLPGIL 102
                +       L LLPGI+
Sbjct: 136 PSEPEVTPPMAPGLGLLPGII 156


>gnl|CDD|164573 CHL00197, carA, carbamoyl-phosphate synthase arginine-specific
           small subunit; Provisional.
          Length = 382

 Score = 26.7 bits (59), Expect = 5.4
 Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 11/60 (18%)

Query: 44  LIVIPGGFSYGDYLRC-----------GAIAARTPVMQAIKKKAQQGIKVMGICNGFQIL 92
           + V+P    Y D L             G  +A    ++ +KK  +  I + GIC G QIL
Sbjct: 217 ITVVPATSPYQDILSYQPDGILLSNGPGDPSAIHYGIKTVKKLLKYNIPIFGICMGHQIL 276


>gnl|CDD|30858 COG0512, PabA, Anthranilate/para-aminobenzoate synthases
          component II [Amino acid transport and metabolism /
          Coenzyme metabolism].
          Length = 191

 Score = 26.7 bits (59), Expect = 5.8
 Identities = 6/28 (21%), Positives = 14/28 (50%)

Query: 67 PVMQAIKKKAQQGIKVMGICNGFQILVE 94
           +   + ++    I ++G+C G Q + E
Sbjct: 62 GISLELIRRFAGRIPILGVCLGHQAIAE 89


>gnl|CDD|36835 KOG1622, KOG1622, KOG1622, GMP synthase [Nucleotide transport and
           metabolism].
          Length = 552

 Score = 26.4 bits (58), Expect = 6.9
 Identities = 9/18 (50%), Positives = 14/18 (77%)

Query: 79  GIKVMGICNGFQILVELN 96
           G+ V+GIC G Q++ +LN
Sbjct: 88  GVPVLGICYGMQLINKLN 105


>gnl|CDD|145578 pfam02514, CobN-Mg_chel, CobN/Magnesium Chelatase.  This family
           contains a domain common to the cobN protein and to
           magnesium protoporphyrin chelatase. CobN is implicated
           in the conversion of hydrogenobyrinic acid a,c-diamide
           to cobyrinic acid. Magnesium protoporphyrin chelatase is
           involved in chlorophyll biosynthesis.
          Length = 1064

 Score = 26.0 bits (58), Expect = 7.8
 Identities = 19/81 (23%), Positives = 27/81 (33%), Gaps = 19/81 (23%)

Query: 11  LNRDNDMIKAITKII---GQSPILVWQS------------DTDIPDVDLIVIPGGFSYGD 55
           L  D   I A+ + +   G + I V+                  P VD I+   GFS   
Sbjct: 81  LAGDTAHIDALIRALEARGLNVIPVFSDLDSREAVRDFFFRDGEPKVDAIINLTGFSLVG 140

Query: 56  YLRCGAIAART----PVMQAI 72
                 +        PV+QAI
Sbjct: 141 GPAENGVELLKKLDVPVLQAI 161


>gnl|CDD|153239 cd03145, GAT1_cyanophycinase, Type 1 glutamine amidotransferase
           (GATase1)-like domain found in cyanophycinase.  Type 1
           glutamine amidotransferase (GATase1)-like domain found
           in cyanophycinase. This group contains proteins similar
           to the extracellular cyanophycinases from Pseudomonas
           anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803
           CphB.  Cyanophycinases are intracellular exopeptidases
           which hydrolyze the polymer cyanophycin (multi
           L-arginyl-poly-L-aspartic acid) to the dipeptide
           beta-Asp-Arg. Cyanophycinase is believed to be a
           serine-type exopeptidase having a Ser-His-Glu catalytic
           triad which differs from the Cys-His-Glu catalytic triad
           typical of GATase1 domains by having a Ser in place of
           the reactive Cys at the nucleophile elbow.
          Length = 217

 Score = 25.7 bits (57), Expect = 9.4
 Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 4/45 (8%)

Query: 41  DVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQGIKVMGI 85
           D D I   GG    D LR  +    TP++ A++K  + G+ + G 
Sbjct: 83  DADGIFFTGG----DQLRITSALGGTPLLDALRKVYRGGVVIGGT 123


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.323    0.141    0.421 

Gapped
Lambda     K      H
   0.267   0.0796    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,689,711
Number of extensions: 141884
Number of successful extensions: 408
Number of sequences better than 10.0: 1
Number of HSP's gapped: 381
Number of HSP's successfully gapped: 58
Length of query: 219
Length of database: 6,263,737
Length adjustment: 90
Effective length of query: 129
Effective length of database: 4,318,927
Effective search space: 557141583
Effective search space used: 557141583
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: 55 (24.8 bits)