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Q87I05

- GCSP_VIBPA

UniProt

Q87I05 - GCSP_VIBPA

Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 71 (01 Oct 2014)
      Sequence version 1 (01 Jun 2003)
      Previous versions | rss
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    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

    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.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

    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)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
    Gene namesi
    Name:gcvPUniRule annotation
    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)PRO_0000166945Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei704 – 7041N6-(pyridoxal phosphate)lysineUniRule annotation

    Proteomic databases

    PRIDEiQ87I05.

    Interactioni

    Subunit structurei

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

    Protein-protein interaction databases

    STRINGi223926.VPA0801.

    Structurei

    3D structure databases

    ProteinModelPortaliQ87I05.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the GcvP family.UniRule annotation

    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: October 1, 2014
    This is version 71 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, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3