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Q87I05

- GCSP_VIBPA

UniProt

Q87I05 - GCSP_VIBPA

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Protein
Glycine dehydrogenase (decarboxylating)
Gene
gcvP, VPA0801
Organism
Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
Status
Reviewed - Annotation score: 3 out of 5 - Protein inferred from homologyi

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 By similarity.UniRule annotation

Catalytic activityi

Glycine + [glycine-cleavage complex H protein]-N(6)-lipoyl-L-lysine = [glycine-cleavage complex H protein]-S-aminomethyl-N(6)-dihydrolipoyl-L-lysine + CO2.UniRule annotation

Cofactori

Pyridoxal phosphate By similarity.UniRule annotation

GO - Molecular functioni

  1. glycine dehydrogenase (decarboxylating) activity Source: UniProtKB-EC
  2. pyridoxal phosphate binding Source: InterPro

GO - Biological processi

  1. glycine decarboxylation via glycine cleavage system Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

BioCyciVPAR223926:GHK4-4034-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Glycine dehydrogenase (decarboxylating) (EC:1.4.4.2)
Alternative name(s):
Glycine cleavage system P-protein
Glycine decarboxylase
Glycine dehydrogenase (aminomethyl-transferring)
Gene namesi
Name:gcvP
Ordered Locus Names:VPA0801
OrganismiVibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
Taxonomic identifieri223926 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
ProteomesiUP000002493: Chromosome 2

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 954954Glycine dehydrogenase (decarboxylating)UniRule annotation
PRO_0000166945Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei704 – 7041N6-(pyridoxal phosphate)lysine By similarity

Proteomic databases

PRIDEiQ87I05.

Interactioni

Subunit structurei

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

Protein-protein interaction databases

STRINGi223926.VPA0801.

Structurei

3D structure databases

ProteinModelPortaliQ87I05.

Family & Domainsi

Sequence similaritiesi

Belongs to the GcvP family.

Phylogenomic databases

eggNOGiCOG1003.
HOGENOMiHOG000239369.
KOiK00281.
OMAiIRVQVII.
OrthoDBiEOG6HMXDX.

Family and domain databases

Gene3Di3.40.640.10. 2 hits.
HAMAPiMF_00711. GcvP.
InterProiIPR020580. GDC-P_N.
IPR020581. GDC_P.
IPR003437. GDC_P_homo.
IPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
[Graphical view]
PANTHERiPTHR11773. PTHR11773. 1 hit.
PfamiPF02347. GDC-P. 2 hits.
[Graphical view]
SUPFAMiSSF53383. SSF53383. 3 hits.
TIGRFAMsiTIGR00461. gcvP. 1 hit.

Sequencei

Sequence statusi: Complete.

Q87I05-1 [UniParc]FASTAAdd to Basket

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MTELLQSLST QNEFVGRHNG PKLSDQQKML EAINAVSLDA LISETVPANI    50
RLEQPMTLAE AKSEADMLAT MKQFAKQNQV KRTFIGQGYY NTFTPNVILR 100
NVLENPGWYT AYTPYQPEIS QGRLESLLNF QQMVIDLTGM EIANASLLDE 150
ATAAAEAMTL CKRAGKSKSN VFFVADDVHP QTIEVVKTRA KFIGFEVLVG 200
SLESLPEQDV FGALVQYPST TGEVRDLTDI IAKAQANKTL VTVATDLLAC 250
TLLKPAGEMG ADVAIGSAQR FGVPMGYGGP HAAFMATRDK HKRTMPGRVI 300
GVSIDAKGNQ ALRMAMQTRE QHIRREKATS NICTAQALLA NMASFYAVYH 350
GAEGLRTIAR RTHHMTAILA AGLTKGGFEL AHNSFFDTIT INTGEKTQDL 400
YTKALAADIN LRVLPGKLGI SLDETTTVAD VEALFAIFGV KEDVTALSTE 450
VAGNEFAAIP EALRRTSEYL THPVFNTYHS ETQMMRYLKQ LENKDFSLTH 500
GMIPLGSCTM KLNAAAEMIP ITWPEFGSIH PFAPAEQAAG YAALAKDLKE 550
KLCEITGYDA FSLQPNSGAS GEYAGLIAIQ RYHESRGEGH RNVCLIPSSA 600
HGTNPATASM VSMKVVVVKC DDEGNIDIDD LAAKIEKHKD NLSSIMITYP 650
STHGVYEEKV KEVCEMVHAA GGQVYLDGAN MNAQVGLTSP GFIGSDVSHL 700
NLHKTFCIPH GGGGPGMGPI GVKSHLAPFL PGHIENGVEG EDFAVSAADF 750
GSASILPISW AYIAMMGEAG LSNATKVAIL NANYVMERLR PHYPVLYRGK 800
NGRVAHECII DIRPLKEETG ISEEDIAKRL MDYGFHAPTM SFPVAGTLMV 850
EPTESEDLAE LNRFCDAMIS IREEMTKVKN GEWPLENNPL VNAPHTQVDL 900
SAEEWDRPYS RELGCFPSKA TKSWKYWPTV NRVDNVYGDR NLICSCPSID 950
NYED 954
Length:954
Mass (Da):104,123
Last modified:June 1, 2003 - v1
Checksum:i06CE72937E173D84
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000032 Genomic DNA. Translation: BAC62144.1.
RefSeqiNP_800311.1. NC_004605.1.

Genome annotation databases

EnsemblBacteriaiBAC62144; BAC62144; BAC62144.
GeneIDi1191490.
KEGGivpa:VPA0801.
PATRICi20145999. VBIVibPar50997_3732.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000032 Genomic DNA. Translation: BAC62144.1 .
RefSeqi NP_800311.1. NC_004605.1.

3D structure databases

ProteinModelPortali Q87I05.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 223926.VPA0801.

Proteomic databases

PRIDEi Q87I05.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAC62144 ; BAC62144 ; BAC62144 .
GeneIDi 1191490.
KEGGi vpa:VPA0801.
PATRICi 20145999. VBIVibPar50997_3732.

Phylogenomic databases

eggNOGi COG1003.
HOGENOMi HOG000239369.
KOi K00281.
OMAi IRVQVII.
OrthoDBi EOG6HMXDX.

Enzyme and pathway databases

BioCyci VPAR223926:GHK4-4034-MONOMER.

Family and domain databases

Gene3Di 3.40.640.10. 2 hits.
HAMAPi MF_00711. GcvP.
InterProi IPR020580. GDC-P_N.
IPR020581. GDC_P.
IPR003437. GDC_P_homo.
IPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
[Graphical view ]
PANTHERi PTHR11773. PTHR11773. 1 hit.
Pfami PF02347. GDC-P. 2 hits.
[Graphical view ]
SUPFAMi SSF53383. SSF53383. 3 hits.
TIGRFAMsi TIGR00461. gcvP. 1 hit.
ProtoNeti Search...

Publicationsi

  1. "Genome sequence of Vibrio parahaemolyticus: a pathogenic mechanism distinct from that of V. cholerae."
    Makino K., Oshima K., Kurokawa K., Yokoyama K., Uda T., Tagomori K., Iijima Y., Najima M., Nakano M., Yamashita A., Kubota Y., Kimura S., Yasunaga T., Honda T., Shinagawa H., Hattori M., Iida T.
    Lancet 361:743-749(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: RIMD 2210633.

Entry informationi

Entry nameiGCSP_VIBPA
AccessioniPrimary (citable) accession number: Q87I05
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 19, 2003
Last sequence update: June 1, 2003
Last modified: May 14, 2014
This is version 70 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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