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Conserved domains on  [gi|446212636|ref|WP_000290491|]
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MULTISPECIES: glycine cleavage system protein GcvH [Staphylococcus]

Protein Classification

glycine cleavage system H protein( domain architecture ID 10792137)

glycine cleavage system H protein (GcvH) plays a role in the degradation of glycine by shuttling the methylamine group of glycine from P-protein (glycine dehydrogenase) to the T-protein (aminomethyltransferase).

Gene Ontology:  GO:0019464|GO:0009249|GO:0005960
PubMed:  20375021|18941301
SCOP:  4002909

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK01202 PRK01202
glycine cleavage system protein GcvH;
1-126 1.50e-70

glycine cleavage system protein GcvH;


:

Pssm-ID: 234918  Cd Length: 127  Bit Score: 206.93  E-value: 1.50e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446212636   1 MAVPNELKYSKEHEWVKVEGNVATIGITEYAQSELGDIVFVELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEVN 80
Cdd:PRK01202   2 MNIPADLKYTKSHEWVRVEGDTATVGITDHAQEQLGDIVFVELPEVGDEVKAGETFGVVESVKAASDIYAPVSGEVVEVN 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 446212636  81 EELEDSPEFVNESPYEKAWMVKVEISDESQLEALLTAEKYSEMIGE 126
Cdd:PRK01202  82 EALEDSPELVNEDPYGEGWLFKIKPSDESELDDLLDAEAYEALIEE 127
 
Name Accession Description Interval E-value
PRK01202 PRK01202
glycine cleavage system protein GcvH;
1-126 1.50e-70

glycine cleavage system protein GcvH;


Pssm-ID: 234918  Cd Length: 127  Bit Score: 206.93  E-value: 1.50e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446212636   1 MAVPNELKYSKEHEWVKVEGNVATIGITEYAQSELGDIVFVELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEVN 80
Cdd:PRK01202   2 MNIPADLKYTKSHEWVRVEGDTATVGITDHAQEQLGDIVFVELPEVGDEVKAGETFGVVESVKAASDIYAPVSGEVVEVN 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 446212636  81 EELEDSPEFVNESPYEKAWMVKVEISDESQLEALLTAEKYSEMIGE 126
Cdd:PRK01202  82 EALEDSPELVNEDPYGEGWLFKIKPSDESELDDLLDAEAYEALIEE 127
GcvH COG0509
Glycine cleavage system protein H (lipoate-binding) [Amino acid transport and metabolism]; ...
 1-126 1.17e-69

Glycine cleavage system protein H (lipoate-binding) [Amino acid transport and metabolism]; Glycine cleavage system protein H (lipoate-binding) is part of the Pathway/BioSystem: Glycine cleavage


Pssm-ID: 440275  Cd Length: 128  Bit Score: 204.97  E-value: 1.17e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446212636   1 MAVPNELKYSKEHEWVKVEGN-VATIGITEYAQSELGDIVFVELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEV 79
Cdd:COG0509    1 MEIPDDLKYTEDHEWVRVEGDgTATVGITDFAQDLLGDIVFVELPEVGTEVEAGEPFGVVESVKAVSDLYAPVSGEVVEV 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 446212636  80 NEELEDSPEFVNESPYEKAWMVKVEISDESQLEALLTAEKYSEMIGE 126
Cdd:COG0509   81 NEALEDDPELVNEDPYGEGWLFKIKPSDPAELDDLLDAEAYAALLEE 127
gcvH TIGR00527
glycine cleavage system H protein; This model represents the glycine cleavage system H protein, ...
 3-124 1.63e-50

glycine cleavage system H protein; This model represents the glycine cleavage system H protein, which shuttles the methylamine group of glycine from the P protein to the T protein. The mature protein is about 130 residues long and contains a lipoyl group covalently bound to a conserved Lys residue. The genome of Aquifex aeolicus contains one protein scoring above the trusted cutoff and clustering with other bacterial H proteins, and four more proteins clustering together and scoring below the trusted cutoff; it seems doubtful that all of these homologs are authentic H protein. The Chlamydial homolog of H protein is nearly as divergent as the Aquifex outgroup, is not accompanied by P and T proteins, is not included in the seed alignment, and consequently also scores below the trusted cutoff. [Energy metabolism, Amino acids and amines]


Pssm-ID: 200024  Cd Length: 128  Bit Score: 156.53  E-value: 1.63e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446212636    3 VPNELKYSKEHEWVKVEGN-VATIGITEYAQSELGDIVFVELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEVNE 81
Cdd:TIGR00527   2 GPQDLRYSSEHEWVRVEGDkTATVGITKFAQDELGDIVFVELPEVGAEVAAGESLGSVESVKAASDIYAPVDGTVVEVNT 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 446212636   82 ELEDSPEFVNESPYEKAWMVKVEISD-ESQLEALLTAEKYSEMI 124
Cdd:TIGR00527  82 ALEDSPELVNEDPYGDGWLIKVKLSDgESEVEGLMSAEQYEATL 125
GCV_H pfam01597
Glycine cleavage H-protein; This is a family of glycine cleavage H-proteins, part of the ...
 7-126 4.83e-49

Glycine cleavage H-protein; This is a family of glycine cleavage H-proteins, part of the glycine cleavage multienzyme complex (GCV) found in bacteria and the mitochondria of eukaryotes. GCV catalyzes the catabolism of glycine in eukaryotes. A lipoyl group is attached to a completely conserved lysine residue. The H protein shuttles the methylamine group of glycine from the P protein to the T protein.


Pssm-ID: 396258  Cd Length: 122  Bit Score: 152.49  E-value: 4.83e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446212636    7 LKYSKEHEWVKVEGN-VATIGITEYAQSELGDIVFVELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEVNEELED 85
Cdd:pfam01597   1 LYYTKEHEWVKVEGDgTATVGITDFAQAQLGDIVFVELPEVGTKVKKGESLAAIESVKAASPIYAPVSGEVVEVNEKLED 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 446212636   86 SPEFVNESPYEKAWMVKVEISDESQLEALLTAEKYSEMIGE 126
Cdd:pfam01597  81 NPGLINKDPYEDGWIAKLKPSNLEELESLMTAEQYEKTLKE 121
GCS_H cd06848
Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage ...
 9-103 1.21e-47

Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and L-proteins) which catalyzes the oxidative cleavage of glycine. The H-protein shuttles the methylamine group of glycine from the P-protein (glycine dehydrogenase) to the T-protein (aminomethyltransferase) via a lipoyl group, attached to a completely conserved lysine residue.


Pssm-ID: 133457 [Multi-domain]  Cd Length: 96  Bit Score: 148.07  E-value: 1.21e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446212636   9 YSKEHEWVKVEGN-VATIGITEYAQSELGDIVFVELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEVNEELEDSP 87
Cdd:cd06848    1 YTKDHEWVKVEGDgIATVGITDYAQDLLGDIVFVELPEVGTEVKKGDPFGSVESVKAASDLYSPVSGEVVEVNEALLDNP 80

                         90
                 ....*....|....*.
gi 446212636  88 EFVNESPYEKAWMVKV 103
Cdd:cd06848   81 ELINSDPYGEGWLVKI 96
 
Name Accession Description Interval E-value
PRK01202 PRK01202
glycine cleavage system protein GcvH;
1-126 1.50e-70

glycine cleavage system protein GcvH;


Pssm-ID: 234918  Cd Length: 127  Bit Score: 206.93  E-value: 1.50e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446212636   1 MAVPNELKYSKEHEWVKVEGNVATIGITEYAQSELGDIVFVELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEVN 80
Cdd:PRK01202   2 MNIPADLKYTKSHEWVRVEGDTATVGITDHAQEQLGDIVFVELPEVGDEVKAGETFGVVESVKAASDIYAPVSGEVVEVN 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 446212636  81 EELEDSPEFVNESPYEKAWMVKVEISDESQLEALLTAEKYSEMIGE 126
Cdd:PRK01202  82 EALEDSPELVNEDPYGEGWLFKIKPSDESELDDLLDAEAYEALIEE 127
GcvH COG0509
Glycine cleavage system protein H (lipoate-binding) [Amino acid transport and metabolism]; ...
 1-126 1.17e-69

Glycine cleavage system protein H (lipoate-binding) [Amino acid transport and metabolism]; Glycine cleavage system protein H (lipoate-binding) is part of the Pathway/BioSystem: Glycine cleavage


Pssm-ID: 440275  Cd Length: 128  Bit Score: 204.97  E-value: 1.17e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446212636   1 MAVPNELKYSKEHEWVKVEGN-VATIGITEYAQSELGDIVFVELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEV 79
Cdd:COG0509    1 MEIPDDLKYTEDHEWVRVEGDgTATVGITDFAQDLLGDIVFVELPEVGTEVEAGEPFGVVESVKAVSDLYAPVSGEVVEV 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 446212636  80 NEELEDSPEFVNESPYEKAWMVKVEISDESQLEALLTAEKYSEMIGE 126
Cdd:COG0509   81 NEALEDDPELVNEDPYGEGWLFKIKPSDPAELDDLLDAEAYAALLEE 127
gcvH TIGR00527
glycine cleavage system H protein; This model represents the glycine cleavage system H protein, ...
 3-124 1.63e-50

glycine cleavage system H protein; This model represents the glycine cleavage system H protein, which shuttles the methylamine group of glycine from the P protein to the T protein. The mature protein is about 130 residues long and contains a lipoyl group covalently bound to a conserved Lys residue. The genome of Aquifex aeolicus contains one protein scoring above the trusted cutoff and clustering with other bacterial H proteins, and four more proteins clustering together and scoring below the trusted cutoff; it seems doubtful that all of these homologs are authentic H protein. The Chlamydial homolog of H protein is nearly as divergent as the Aquifex outgroup, is not accompanied by P and T proteins, is not included in the seed alignment, and consequently also scores below the trusted cutoff. [Energy metabolism, Amino acids and amines]


Pssm-ID: 200024  Cd Length: 128  Bit Score: 156.53  E-value: 1.63e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446212636    3 VPNELKYSKEHEWVKVEGN-VATIGITEYAQSELGDIVFVELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEVNE 81
Cdd:TIGR00527   2 GPQDLRYSSEHEWVRVEGDkTATVGITKFAQDELGDIVFVELPEVGAEVAAGESLGSVESVKAASDIYAPVDGTVVEVNT 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 446212636   82 ELEDSPEFVNESPYEKAWMVKVEISD-ESQLEALLTAEKYSEMI 124
Cdd:TIGR00527  82 ALEDSPELVNEDPYGDGWLIKVKLSDgESEVEGLMSAEQYEATL 125
GCV_H pfam01597
Glycine cleavage H-protein; This is a family of glycine cleavage H-proteins, part of the ...
 7-126 4.83e-49

Glycine cleavage H-protein; This is a family of glycine cleavage H-proteins, part of the glycine cleavage multienzyme complex (GCV) found in bacteria and the mitochondria of eukaryotes. GCV catalyzes the catabolism of glycine in eukaryotes. A lipoyl group is attached to a completely conserved lysine residue. The H protein shuttles the methylamine group of glycine from the P protein to the T protein.


Pssm-ID: 396258  Cd Length: 122  Bit Score: 152.49  E-value: 4.83e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446212636    7 LKYSKEHEWVKVEGN-VATIGITEYAQSELGDIVFVELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEVNEELED 85
Cdd:pfam01597   1 LYYTKEHEWVKVEGDgTATVGITDFAQAQLGDIVFVELPEVGTKVKKGESLAAIESVKAASPIYAPVSGEVVEVNEKLED 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 446212636   86 SPEFVNESPYEKAWMVKVEISDESQLEALLTAEKYSEMIGE 126
Cdd:pfam01597  81 NPGLINKDPYEDGWIAKLKPSNLEELESLMTAEQYEKTLKE 121
GCS_H cd06848
Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage ...
 9-103 1.21e-47

Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and L-proteins) which catalyzes the oxidative cleavage of glycine. The H-protein shuttles the methylamine group of glycine from the P-protein (glycine dehydrogenase) to the T-protein (aminomethyltransferase) via a lipoyl group, attached to a completely conserved lysine residue.


Pssm-ID: 133457 [Multi-domain]  Cd Length: 96  Bit Score: 148.07  E-value: 1.21e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446212636   9 YSKEHEWVKVEGN-VATIGITEYAQSELGDIVFVELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEVNEELEDSP 87
Cdd:cd06848    1 YTKDHEWVKVEGDgIATVGITDYAQDLLGDIVFVELPEVGTEVKKGDPFGSVESVKAASDLYSPVSGEVVEVNEALLDNP 80

                         90
                 ....*....|....*.
gi 446212636  88 EFVNESPYEKAWMVKV 103
Cdd:cd06848   81 ELINSDPYGEGWLVKI 96
PRK13380 PRK13380
glycine cleavage system protein H; Provisional
 3-126 2.67e-38

glycine cleavage system protein H; Provisional


Pssm-ID: 237370  Cd Length: 144  Bit Score: 125.88  E-value: 2.67e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446212636   3 VPNELKYSKE-HEWVKVEGN-VATIGITEYAQSELGDIVFVELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEVN 80
Cdd:PRK13380   9 IPSELRYTIKnHEWLRLEGDgTVTVGITDYAQTMAGDVVFVRLKELGKKVEKGKPVATLESGKWAGPVPAPLTGEVVEVN 88

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 446212636  81 EELEDSPEFVNESPYEKAWMVKVEISDESQLEALLTAEKYSEMIGE 126
Cdd:PRK13380  89 EALEDSPELVNEDPYGEGWFFRFKPANPEELKQLLDGDAADRLLKE 134
PRK00624 PRK00624
glycine cleavage system protein H; Provisional
 9-114 1.22e-16

glycine cleavage system protein H; Provisional


Pssm-ID: 167014  Cd Length: 114  Bit Score: 69.86  E-value: 1.22e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446212636   9 YSKEHEWVK-VEGNVATIGITEYAQSELGDIVFVELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEVNEELEDSP 87
Cdd:PRK00624   4 YSDYHVWIEpIHSRIVRLGLTSKMQENLGNILHIDLPSVGSFCKEGEVLVILESSKSAIEVLSPVSGEVIEVNTALEDDI 83

                         90       100
                 ....*....|....*....|....*..
gi 446212636  88 EFVNESPYEKAWMVKVEISDESQLEAL 114
Cdd:PRK00624  84 QPINNAPESEGWFVVVQLDEDFDSENL 110
Biotinyl_lipoyl_domains cd06663
Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the ...
 24-89 5.54e-10

Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl, or methylamine, respectively, between components of the complex/protein via a biotinyl or lipoyl group, which is covalently attached to a highly conserved lysine residue.


Pssm-ID: 133456 [Multi-domain]  Cd Length: 73  Bit Score: 51.67  E-value: 5.54e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446212636  24 TIGITEYAQSeLGDIVFV-ELPETDDEINEGDTFGSVESVKTVSELYAPISGKVVEVNEELEDSPEF 89
Cdd:cd06663    1 TILIPDLAQH-LGDGTVVkWLKKVGDKVKKGDVLAEIEAMKATSDVEAPKSGTVKKVLVKEGTKVEG 66
biotinyl_domain cd06850
The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all ...
 48-86 4.37e-03

The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase, oxaloacetate decarboxylase, methylmalonyl-CoA decarboxylase, transcarboxylase and urea amidolyase. This domain functions in transferring CO2 from one subsite to another, allowing carboxylation, decarboxylation, or transcarboxylation. During this process, biotin is covalently attached to a specific lysine.


Pssm-ID: 133459 [Multi-domain]  Cd Length: 67  Bit Score: 33.54  E-value: 4.37e-03
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 446212636  48 DEINEGDTFGSVESVKTVSELYAPISGKVVEVNEELEDS 86
Cdd:cd06850   19 DKVEAGQPLAVLEAMKMENEVTAPVAGVVKEILVKEGDQ 57
AccB COG0511
Biotin carboxyl carrier protein [Lipid transport and metabolism]; Biotin carboxyl carrier ...
 30-79 6.27e-03

Biotin carboxyl carrier protein [Lipid transport and metabolism]; Biotin carboxyl carrier protein is part of the Pathway/BioSystem: Fatty acid biosynthesis


Pssm-ID: 440277 [Multi-domain]  Cd Length: 136  Bit Score: 34.49  E-value: 6.27e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 446212636  30 YAQSELGDIVFVELPetdDEINEGDTFGSVESVKTVSELYAPISGKVVEV 79
Cdd:COG0511   72 YRAPSPGAKPFVKVG---DKVKAGDTLCIIEAMKMMNEIEAPVSGTVVEI 118
 
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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