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Conserved domains on  [gi|1220131314|gb|ASN78252|]
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CAD1, partial [Acanthinevania sp. 292]

Protein Classification

carbamoyl-phosphate synthase domain-containing protein( domain architecture ID 1003834)

carbamoyl-phosphate synthase domain-containing protein similar to small subunit of carbamoyl phosphate synthetase (CPS) which plays a key role in both arginine and pyrimidine biosynthesis

CATH:  3.40.50.880|3.50.30.20
EC:  6.3.5.5
Gene Ontology:  GO:0005524|GO:0046982|GO:0004359|GO:0004088|GO:0019856|GO:0006526

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CarA super family cl33918
Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism, Nucleotide ...
 2-107 8.24e-34

Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism, Nucleotide transport and metabolism]; Carbamoylphosphate synthase small subunit is part of the Pathway/BioSystem: Arginine biosynthesis


The actual alignment was detected with superfamily member COG0505:

Pssm-ID: 440271 [Multi-domain]  Cd Length: 361  Bit Score: 119.74  E-value: 8.24e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1220131314   2 TKTLSKWMKEQNVPGMYEIDTRALTMIIREKGTILGRIVCNEIP--------KNLPPIEDpnrRNLVACVSTTSPKTYNP 73
Cdd:COG0505    95 EESLDEYLKEHGIPGISGIDTRALTRHLREKGAMKGVISTGDLDieellekaRAAPGMEG---LDLVKEVSTKEPYEWTE 171

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1220131314  74 NGQPRICIV--DCGMKYNQLRCFLSRGACVEVVPWN 107
Cdd:COG0505   172 APGAGFHVValDFGVKRNILRELAERGCRVTVVPAT 207
 
Name Accession Description Interval E-value
CarA COG0505
Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism, Nucleotide ...
 2-107 8.24e-34

Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism, Nucleotide transport and metabolism]; Carbamoylphosphate synthase small subunit is part of the Pathway/BioSystem: Arginine biosynthesis


Pssm-ID: 440271 [Multi-domain]  Cd Length: 361  Bit Score: 119.74  E-value: 8.24e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1220131314   2 TKTLSKWMKEQNVPGMYEIDTRALTMIIREKGTILGRIVCNEIP--------KNLPPIEDpnrRNLVACVSTTSPKTYNP 73
Cdd:COG0505    95 EESLDEYLKEHGIPGISGIDTRALTRHLREKGAMKGVISTGDLDieellekaRAAPGMEG---LDLVKEVSTKEPYEWTE 171

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1220131314  74 NGQPRICIV--DCGMKYNQLRCFLSRGACVEVVPWN 107
Cdd:COG0505   172 APGAGFHVValDFGVKRNILRELAERGCRVTVVPAT 207
PRK12564 PRK12564
carbamoyl-phosphate synthase small subunit;
2-116 2.04e-33

carbamoyl-phosphate synthase small subunit;


Pssm-ID: 237139 [Multi-domain]  Cd Length: 360  Bit Score: 118.64  E-value: 2.04e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1220131314   2 TKTLSKWMKEQNVPGMYEIDTRALTMIIREKGTILGRIVCN--------EIPKNLPPIEDpnrRNLVACVSTTSPKTY-- 71
Cdd:PRK12564   95 EMSLDEYLKENGIPGISGIDTRALTRKLREKGAMKGVIATEdfdaeellEKARAFPGLLG---LDLVKEVSTKEPYPWpg 171

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1220131314  72 -NPNGQPRICIVDCGMKYNQLRCFLSRGACVEVVPWNY---DITKVDYD 116
Cdd:PRK12564  172 pGGELKYKVVAIDFGVKRNILRELAERGCRVTVVPATTtaeEILALNPD 220
CPSase_sm_chain pfam00988
Carbamoyl-phosphate synthase small chain, CPSase domain; The carbamoyl-phosphate synthase ...
 2-39 2.83e-17

Carbamoyl-phosphate synthase small chain, CPSase domain; The carbamoyl-phosphate synthase domain is in the amino terminus of protein. Carbamoyl-phosphate synthase catalyzes the ATP-dependent synthesis of carbamyl-phosphate from glutamine or ammonia and bicarbonate. This important enzyme initiates both the urea cycle and the biosynthesis of arginine and/or pyrimidines. The carbamoyl-phosphate synthase (CPS) enzyme in prokaryotes is a heterodimer of a small and large chain. The small chain promotes the hydrolysis of glutamine to ammonia, which is used by the large chain to synthesize carbamoyl phosphate. See pfam00289. The small chain has a GATase domain in the carboxyl terminus. See pfam00117.


Pssm-ID: 460017 [Multi-domain]  Cd Length: 126  Bit Score: 71.59  E-value: 2.83e-17
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1220131314   2 TKTLSKWMKEQNVPGMYEIDTRALTMIIREKGTILGRI 39
Cdd:pfam00988  89 EESLDEWLKEQGIPGISGVDTRALTRKIREKGAMKGVI 126
GATase1_CPSase cd01744
Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; This ...
 79-116 2.76e-12

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.


Pssm-ID: 153215 [Multi-domain]  Cd Length: 178  Bit Score: 59.82  E-value: 2.76e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1220131314  79 ICIVDCGMKYNQLRCFLSRGACVEVVPWNYD---ITKVDYD 116
Cdd:cd01744     1 VVVIDFGVKHNILRELLKRGCEVTVVPYNTDaeeILKLDPD 41
 
Name Accession Description Interval E-value
CarA COG0505
Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism, Nucleotide ...
 2-107 8.24e-34

Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism, Nucleotide transport and metabolism]; Carbamoylphosphate synthase small subunit is part of the Pathway/BioSystem: Arginine biosynthesis


Pssm-ID: 440271 [Multi-domain]  Cd Length: 361  Bit Score: 119.74  E-value: 8.24e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1220131314   2 TKTLSKWMKEQNVPGMYEIDTRALTMIIREKGTILGRIVCNEIP--------KNLPPIEDpnrRNLVACVSTTSPKTYNP 73
Cdd:COG0505    95 EESLDEYLKEHGIPGISGIDTRALTRHLREKGAMKGVISTGDLDieellekaRAAPGMEG---LDLVKEVSTKEPYEWTE 171

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1220131314  74 NGQPRICIV--DCGMKYNQLRCFLSRGACVEVVPWN 107
Cdd:COG0505   172 APGAGFHVValDFGVKRNILRELAERGCRVTVVPAT 207
PRK12564 PRK12564
carbamoyl-phosphate synthase small subunit;
2-116 2.04e-33

carbamoyl-phosphate synthase small subunit;


Pssm-ID: 237139 [Multi-domain]  Cd Length: 360  Bit Score: 118.64  E-value: 2.04e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1220131314   2 TKTLSKWMKEQNVPGMYEIDTRALTMIIREKGTILGRIVCN--------EIPKNLPPIEDpnrRNLVACVSTTSPKTY-- 71
Cdd:PRK12564   95 EMSLDEYLKENGIPGISGIDTRALTRKLREKGAMKGVIATEdfdaeellEKARAFPGLLG---LDLVKEVSTKEPYPWpg 171

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1220131314  72 -NPNGQPRICIVDCGMKYNQLRCFLSRGACVEVVPWNY---DITKVDYD 116
Cdd:PRK12564  172 pGGELKYKVVAIDFGVKRNILRELAERGCRVTVVPATTtaeEILALNPD 220
PRK12838 PRK12838
carbamoyl phosphate synthase small subunit; Reviewed
 2-107 2.77e-25

carbamoyl phosphate synthase small subunit; Reviewed


Pssm-ID: 183784 [Multi-domain]  Cd Length: 354  Bit Score: 97.27  E-value: 2.77e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1220131314   2 TKTLSKWMKEQNVPGMYEIDTRALTMIIREKGTILGRIVCNEIpknlPPIEDPNRR-----NLVACVSTTSPKTYnPNGQ 76
Cdd:PRK12838   93 KQSLDDFLKEWNIPGISGVDTRALVKHIREKGTMKASITTTDD----AHAFDQIKAlvlpkNVVAQVSTKEPYTY-GNGG 167

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1220131314  77 PRICIVDCGMKYNQLRCFLSRGACVEVVPWN 107
Cdd:PRK12838  168 KHVALIDFGYKKSILRSLSKRGCKVTVLPYD 198
CPSase_sm_chain pfam00988
Carbamoyl-phosphate synthase small chain, CPSase domain; The carbamoyl-phosphate synthase ...
 2-39 2.83e-17

Carbamoyl-phosphate synthase small chain, CPSase domain; The carbamoyl-phosphate synthase domain is in the amino terminus of protein. Carbamoyl-phosphate synthase catalyzes the ATP-dependent synthesis of carbamyl-phosphate from glutamine or ammonia and bicarbonate. This important enzyme initiates both the urea cycle and the biosynthesis of arginine and/or pyrimidines. The carbamoyl-phosphate synthase (CPS) enzyme in prokaryotes is a heterodimer of a small and large chain. The small chain promotes the hydrolysis of glutamine to ammonia, which is used by the large chain to synthesize carbamoyl phosphate. See pfam00289. The small chain has a GATase domain in the carboxyl terminus. See pfam00117.


Pssm-ID: 460017 [Multi-domain]  Cd Length: 126  Bit Score: 71.59  E-value: 2.83e-17
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1220131314   2 TKTLSKWMKEQNVPGMYEIDTRALTMIIREKGTILGRI 39
Cdd:pfam00988  89 EESLDEWLKEQGIPGISGVDTRALTRKIREKGAMKGVI 126
GATase1_CPSase cd01744
Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; This ...
 79-116 2.76e-12

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.


Pssm-ID: 153215 [Multi-domain]  Cd Length: 178  Bit Score: 59.82  E-value: 2.76e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1220131314  79 ICIVDCGMKYNQLRCFLSRGACVEVVPWNYD---ITKVDYD 116
Cdd:cd01744     1 VVVIDFGVKHNILRELLKRGCEVTVVPYNTDaeeILKLDPD 41
carA CHL00197
carbamoyl-phosphate synthase arginine-specific small subunit; Provisional
 1-113 9.32e-09

carbamoyl-phosphate synthase arginine-specific small subunit; Provisional


Pssm-ID: 214392 [Multi-domain]  Cd Length: 382  Bit Score: 51.34  E-value: 9.32e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1220131314   1 QTKTLSKWMKEQNVPGMYEIDTRALTMIIREKGTILGrIVCNEIP---------KNLPPIEDPnrrNLVACVSTT----- 66
Cdd:CHL00197   96 QQESLVSYLQRHKIPFIFGIDTRALTQHLRRFGTMNG-CISNQNLnlsylrakiKESPHMPSS---DLIPRVTTSsyyew 171

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1220131314  67 ---SPKTYNPNG--------QPRICIVDCGMKYNQLRCFLSRGACVEVVPWNYDITKV 113
Cdd:CHL00197  172 dekSHPSFYLADnkrphssyQLKIIVIDFGVKYNILRRLKSFGCSITVVPATSPYQDI 229
GATase pfam00117
Glutamine amidotransferase class-I;
81-114 5.71e-04

Glutamine amidotransferase class-I;


Pssm-ID: 395067 [Multi-domain]  Cd Length: 188  Bit Score: 37.60  E-value: 5.71e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1220131314  81 IVDCGM--KYNQLRCFLSRGACVEVVPWNYDITKVD 114
Cdd:pfam00117   2 LIDNGDsfTYNLARALRELGVEVTVVPNDTPAEEIL 37
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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