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Entry version 85 (02 Dec 2020)
Sequence version 1 (06 Feb 2007)
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Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)
Status
Reviewed-Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor; CO2 is released and the remaining methylamine moiety is then transferred to the lipoamide cofactor of the H protein.

UniRule annotation

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

pyridoxal 5'-phosphateUniRule annotation

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionOxidoreductase
LigandPyridoxal phosphate

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Glycine dehydrogenase (decarboxylating)UniRule annotation (EC:1.4.4.2UniRule annotation)
Alternative name(s):
Glycine cleavage system P-proteinUniRule annotation
Glycine decarboxylaseUniRule annotation
Glycine dehydrogenase (aminomethyl-transferring)UniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:gcvPUniRule annotation
Ordered Locus Names:YE3391
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiYersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri393305 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesYersiniaceaeYersinia
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000000642 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_10000456291 – 959Glycine dehydrogenase (decarboxylating)Add BLAST959

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei708N6-(pyridoxal phosphate)lysineUniRule annotation1

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

The glycine cleavage system is composed of four proteins: P, T, L and H.

UniRule annotation

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
393305.YE3391

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
A1JPN3

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the GcvP family.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
COG0403, Bacteria
COG1003, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_004620_3_2_6

Identification of Orthologs from Complete Genome Data

More...
OMAi
CVPMSEY

Family and domain databases

Conserved Domains Database

More...
CDDi
cd00613, GDC-P, 2 hits

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.40.640.10, 2 hits
3.90.1150.10, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_00711, GcvP, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR003437, GcvP
IPR020581, GDC_P
IPR015424, PyrdxlP-dep_Trfase
IPR015422, PyrdxlP-dep_Trfase_dom1
IPR015421, PyrdxlP-dep_Trfase_major

The PANTHER Classification System

More...
PANTHERi
PTHR11773, PTHR11773, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF02347, GDC-P, 2 hits

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF53383, SSF53383, 2 hits

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR00461, gcvP, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

A1JPN3-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MTQNLSQLEH NDAFIQRHIG SSAEQQQQML AAVGANSLST LIQQIVPADI
60 70 80 90 100
QLPSPPPVGE AATEHQALAE LKGIASQNQR YKSYIGMGYS PVLTPPVILR
110 120 130 140 150
NMLENPGWYT AYTPYQPEVS QGRLEALLNF QQLTQDLTGL DLASASLLDE
160 170 180 190 200
ATAAAESMAL AKRASKLKDA NRFFVADDVH PQTLDVVLTR AETFGFEVIV
210 220 230 240 250
DRAEKVLELD GVFGVLLQQV GTTGELHDYS ALLAELKKRK IITSVAADIM
260 270 280 290 300
ALVLLTAPGK QGADVVFGSA QRFGVPMGYG GPHAAFFACR DEFKRSMPGR
310 320 330 340 350
IIGVSRDAAG NTALRMAMQT REQHIRREKA NSNICTSQVL LANIASLYAV
360 370 380 390 400
YHGPQGLQRI AGRIHRMTDI LAAGLQQAGL ALRFTHWFDT LTVEVKDKAA
410 420 430 440 450
VLARALSFGI NLRTDIHGAV GITLDETTSR EDLQILFTLL VGDNHGLDID
460 470 480 490 500
LLDAKVSQNS QSIQTGMLRQ EPILTHPVFN RYHSETEMMR YMHRLERKDL
510 520 530 540 550
ALNQAMIPLG SCTMKLNAAA EMIPITWPEF AELHPFCPPE QAAGYQQMIG
560 570 580 590 600
QLSQWLVQLT GYDAVCMQPN SGAQGEYAGL LAIRRYHESR NQASRHICLI
610 620 630 640 650
PSSAHGTNPA SAQMAGMSVV VVACDKQGNI DLHDLRQKAG EAGDELSCIM
660 670 680 690 700
VTYPSTHGVY EETIREVCQI VHQFGGQVYL DGANMNAQVG ITTPGYIGAD
710 720 730 740 750
VSHLNLHKTF CIPHGGGGPG MGPIGVKAHL APFVPGHSVV QIDGMTTQQG
760 770 780 790 800
AVSAAPFGSA SILPISWMYI RMMGADGLKQ ASQVAILNAN YIATRLKEAY
810 820 830 840 850
PVLYTGHDGS VAHECILDIR PLKEATGISE MDIAKRLIDF GFHAPTMSFP
860 870 880 890 900
VAGTLMVEPT ESESKVELDR FIDAMLAIRA EIEKVARGEW PLEDNPLVNA
910 920 930 940 950
PHTQAELVGE WQHPYSRELA VFPVAGVMEN KYWPSVKRLD DVYGDRNLFC

SCVPISDYE
Length:959
Mass (Da):104,678
Last modified:February 6, 2007 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i5B50694291651441
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AM286415 Genomic DNA Translation: CAL13417.1

NCBI Reference Sequences

More...
RefSeqi
WP_011817028.1, NC_008800.1
YP_001007560.1, NC_008800.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
CAL13417; CAL13417; YE3391

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
yen:YE3391

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|393305.7.peg.3601

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM286415 Genomic DNA Translation: CAL13417.1
RefSeqiWP_011817028.1, NC_008800.1
YP_001007560.1, NC_008800.1

3D structure databases

SMRiA1JPN3
ModBaseiSearch...

Protein-protein interaction databases

STRINGi393305.YE3391

Genome annotation databases

EnsemblBacteriaiCAL13417; CAL13417; YE3391
KEGGiyen:YE3391
PATRICifig|393305.7.peg.3601

Phylogenomic databases

eggNOGiCOG0403, Bacteria
COG1003, Bacteria
HOGENOMiCLU_004620_3_2_6
OMAiCVPMSEY

Family and domain databases

CDDicd00613, GDC-P, 2 hits
Gene3Di3.40.640.10, 2 hits
3.90.1150.10, 1 hit
HAMAPiMF_00711, GcvP, 1 hit
InterProiView protein in InterPro
IPR003437, GcvP
IPR020581, GDC_P
IPR015424, PyrdxlP-dep_Trfase
IPR015422, PyrdxlP-dep_Trfase_dom1
IPR015421, PyrdxlP-dep_Trfase_major
PANTHERiPTHR11773, PTHR11773, 1 hit
PfamiView protein in Pfam
PF02347, GDC-P, 2 hits
SUPFAMiSSF53383, SSF53383, 2 hits
TIGRFAMsiTIGR00461, gcvP, 1 hit

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiGCSP_YERE8
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: A1JPN3
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: February 6, 2007
Last modified: December 2, 2020
This is version 85 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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