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Conserved domains on  [gi|1065301|pdb|1HPC|A]
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Chain A, H PROTEIN OF THE GLYCINE CLEAVAGE SYSTEM

Protein Classification

glycine cleavage system protein H( domain architecture ID 10785558)

glycine cleavage system protein H 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).

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
GcvH COG0509
Glycine cleavage system protein H (lipoate-binding) [Amino acid transport and metabolism]; ...
 1-127 2.20e-67

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: 199.19  E-value: 2.20e-67
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A        1 SNVLDGLKYAPSHEWVKHEG-SVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEV 79
Cdd:COG0509   1 MEIPDDLKYTEDHEWVRVEGdGTATVGITDFAQDLLGDIVFVELPEVGTEVEAGEPFGVVESVKAVSDLYAPVSGEVVEV 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*...
1HPC_A       80 NTGLTGKPGLINSSPYEDGWMIKIKPTSPDELESLLGAKEYTKFCEEE 127
Cdd:COG0509  81 NEALEDDPELVNEDPYGEGWLFKIKPSDPAELDDLLDAEAYAALLEEE 128
 
Name Accession Description Interval E-value
GcvH COG0509
Glycine cleavage system protein H (lipoate-binding) [Amino acid transport and metabolism]; ...
 1-127 2.20e-67

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: 199.19  E-value: 2.20e-67
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A        1 SNVLDGLKYAPSHEWVKHEG-SVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEV 79
Cdd:COG0509   1 MEIPDDLKYTEDHEWVRVEGdGTATVGITDFAQDLLGDIVFVELPEVGTEVEAGEPFGVVESVKAVSDLYAPVSGEVVEV 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*...
1HPC_A       80 NTGLTGKPGLINSSPYEDGWMIKIKPTSPDELESLLGAKEYTKFCEEE 127
Cdd:COG0509  81 NEALEDDPELVNEDPYGEGWLFKIKPSDPAELDDLLDAEAYAALLEEE 128
PRK01202 PRK01202
glycine cleavage system protein GcvH;
1-126 1.37e-65

glycine cleavage system protein GcvH;


Pssm-ID: 234918  Cd Length: 127  Bit Score: 194.61  E-value: 1.37e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A         1 SNVLDGLKYAPSHEWVKHEGSVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVN 80
Cdd:PRK01202   2 MNIPADLKYTKSHEWVRVEGDTATVGITDHAQEQLGDIVFVELPEVGDEVKAGETFGVVESVKAASDIYAPVSGEVVEVN 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
1HPC_A        81 TGLTGKPGLINSSPYEDGWMIKIKPTSPDELESLLGAKEYTKFCEE 126
Cdd:PRK01202  82 EALEDSPELVNEDPYGEGWLFKIKPSDESELDDLLDAEAYEALIEE 127
GCV_H pfam01597
Glycine cleavage H-protein; This is a family of glycine cleavage H-proteins, part of the ...
 7-127 4.39e-57

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: 173.29  E-value: 4.39e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A          7 LKYAPSHEWVKHEGS-VATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVNTGLTG 85
Cdd:pfam01597   1 LYYTKEHEWVKVEGDgTATVGITDFAQAQLGDIVFVELPEVGTKVKKGESLAAIESVKAASPIYAPVSGEVVEVNEKLED 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
1HPC_A         86 KPGLINSSPYEDGWMIKIKPTSPDELESLLGAKEYTKFCEEE 127
Cdd:pfam01597  81 NPGLINKDPYEDGWIAKLKPSNLEELESLMTAEQYEKTLKEI 122
GCS_H cd06848
Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage ...
 9-103 5.45e-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: 146.52  E-value: 5.45e-47
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A        9 YAPSHEWVKHEG-SVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVNTGLTGKP 87
Cdd:cd06848   1 YTKDHEWVKVEGdGIATVGITDYAQDLLGDIVFVELPEVGTEVKKGDPFGSVESVKAASDLYSPVSGEVVEVNEALLDNP 80

                        90
                ....*....|....*.
1HPC_A       88 GLINSSPYEDGWMIKI 103
Cdd:cd06848  81 ELINSDPYGEGWLVKI 96
gcvH TIGR00527
glycine cleavage system H protein; This model represents the glycine cleavage system H protein, ...
 2-127 2.81e-44

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: 141.13  E-value: 2.81e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A          2 NVLDGLKYAPSHEWVKHEG-SVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVN 80
Cdd:TIGR00527   1 QGPQDLRYSSEHEWVRVEGdKTATVGITKFAQDELGDIVFVELPEVGAEVAAGESLGSVESVKAASDIYAPVDGTVVEVN 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
1HPC_A         81 TGLTGKPGLINSSPYEDGWMIKIKPTSP-DELESLLGAKEYTKFCEEE 127
Cdd:TIGR00527  81 TALEDSPELVNEDPYGDGWLIKVKLSDGeSEVEGLMSAEQYEATLEHD 128
 
Name Accession Description Interval E-value
GcvH COG0509
Glycine cleavage system protein H (lipoate-binding) [Amino acid transport and metabolism]; ...
 1-127 2.20e-67

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: 199.19  E-value: 2.20e-67
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A        1 SNVLDGLKYAPSHEWVKHEG-SVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEV 79
Cdd:COG0509   1 MEIPDDLKYTEDHEWVRVEGdGTATVGITDFAQDLLGDIVFVELPEVGTEVEAGEPFGVVESVKAVSDLYAPVSGEVVEV 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*...
1HPC_A       80 NTGLTGKPGLINSSPYEDGWMIKIKPTSPDELESLLGAKEYTKFCEEE 127
Cdd:COG0509  81 NEALEDDPELVNEDPYGEGWLFKIKPSDPAELDDLLDAEAYAALLEEE 128
PRK01202 PRK01202
glycine cleavage system protein GcvH;
1-126 1.37e-65

glycine cleavage system protein GcvH;


Pssm-ID: 234918  Cd Length: 127  Bit Score: 194.61  E-value: 1.37e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A         1 SNVLDGLKYAPSHEWVKHEGSVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVN 80
Cdd:PRK01202   2 MNIPADLKYTKSHEWVRVEGDTATVGITDHAQEQLGDIVFVELPEVGDEVKAGETFGVVESVKAASDIYAPVSGEVVEVN 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
1HPC_A        81 TGLTGKPGLINSSPYEDGWMIKIKPTSPDELESLLGAKEYTKFCEE 126
Cdd:PRK01202  82 EALEDSPELVNEDPYGEGWLFKIKPSDESELDDLLDAEAYEALIEE 127
GCV_H pfam01597
Glycine cleavage H-protein; This is a family of glycine cleavage H-proteins, part of the ...
 7-127 4.39e-57

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: 173.29  E-value: 4.39e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A          7 LKYAPSHEWVKHEGS-VATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVNTGLTG 85
Cdd:pfam01597   1 LYYTKEHEWVKVEGDgTATVGITDFAQAQLGDIVFVELPEVGTKVKKGESLAAIESVKAASPIYAPVSGEVVEVNEKLED 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
1HPC_A         86 KPGLINSSPYEDGWMIKIKPTSPDELESLLGAKEYTKFCEEE 127
Cdd:pfam01597  81 NPGLINKDPYEDGWIAKLKPSNLEELESLMTAEQYEKTLKEI 122
GCS_H cd06848
Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage ...
 9-103 5.45e-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: 146.52  E-value: 5.45e-47
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A        9 YAPSHEWVKHEG-SVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVNTGLTGKP 87
Cdd:cd06848   1 YTKDHEWVKVEGdGIATVGITDYAQDLLGDIVFVELPEVGTEVKKGDPFGSVESVKAASDLYSPVSGEVVEVNEALLDNP 80

                        90
                ....*....|....*.
1HPC_A       88 GLINSSPYEDGWMIKI 103
Cdd:cd06848  81 ELINSDPYGEGWLVKI 96
gcvH TIGR00527
glycine cleavage system H protein; This model represents the glycine cleavage system H protein, ...
 2-127 2.81e-44

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: 141.13  E-value: 2.81e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A          2 NVLDGLKYAPSHEWVKHEG-SVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVN 80
Cdd:TIGR00527   1 QGPQDLRYSSEHEWVRVEGdKTATVGITKFAQDELGDIVFVELPEVGAEVAAGESLGSVESVKAASDIYAPVDGTVVEVN 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
1HPC_A         81 TGLTGKPGLINSSPYEDGWMIKIKPTSP-DELESLLGAKEYTKFCEEE 127
Cdd:TIGR00527  81 TALEDSPELVNEDPYGDGWLIKVKLSDGeSEVEGLMSAEQYEATLEHD 128
PRK13380 PRK13380
glycine cleavage system protein H; Provisional
 9-130 2.98e-40

glycine cleavage system protein H; Provisional


Pssm-ID: 237370  Cd Length: 144  Bit Score: 131.28  E-value: 2.98e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A         9 YAPSHEWVKHEGS-VATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVNTGLTGKP 87
Cdd:PRK13380  16 TIKNHEWLRLEGDgTVTVGITDYAQTMAGDVVFVRLKELGKKVEKGKPVATLESGKWAGPVPAPLTGEVVEVNEALEDSP 95

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
1HPC_A        88 GLINSSPYEDGWMIKIKPTSPDELESLLGAKEYTKFCEEEDAA 130
Cdd:PRK13380  96 ELVNEDPYGEGWFFRFKPANPEELKQLLDGDAADRLLKENIDA 138
Biotinyl_lipoyl_domains cd06663
Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the ...
 24-103 2.80e-19

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: 75.56  E-value: 2.80e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A       24 TIGITDHAQdHLGEVVFV-ELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVNTGLTGKpglinssPYEDGWMIK 102
Cdd:cd06663   1 TILIPDLAQ-HLGDGTVVkWLKKVGDKVKKGDVLAEIEAMKATSDVEAPKSGTVKKVLVKEGTK-------VEGDTPLVK 72


                .
1HPC_A      103 I 103
Cdd:cd06663  73 I 73
PRK00624 PRK00624
glycine cleavage system protein H; Provisional
 9-114 4.33e-17

glycine cleavage system protein H; Provisional


Pssm-ID: 167014  Cd Length: 114  Bit Score: 71.40  E-value: 4.33e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1HPC_A         9 YAPSHEWVK--HEgSVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVNTGLTGK 86
Cdd:PRK00624   4 YSDYHVWIEpiHS-RIVRLGLTSKMQENLGNILHIDLPSVGSFCKEGEVLVILESSKSAIEVLSPVSGEVIEVNTALEDD 82

                         90       100
                 ....*....|....*....|....*...
1HPC_A        87 PGLINSSPYEDGWMIKIKPTSPDELESL 114
Cdd:PRK00624  83 IQPINNAPESEGWFVVVQLDEDFDSENL 110
 
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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