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C4XJB9

- GCSPA_DESMR

UniProt

C4XJB9 - GCSPA_DESMR

Protein

Probable glycine dehydrogenase (decarboxylating) subunit 1

Gene

gcvPA

Organism
Desulfovibrio magneticus (strain ATCC 700980 / DSM 13731 / RS-1)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 36 (01 Oct 2014)
      Sequence version 1 (28 Jul 2009)
      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

    GO - Molecular functioni

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

    GO - Biological processi

    1. glycine catabolic process Source: InterPro
    2. nucleoside metabolic process Source: InterPro

    Keywords - Molecular functioni

    Oxidoreductase

    Enzyme and pathway databases

    BioCyciDMAG573370:GHJL-3221-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Probable glycine dehydrogenase (decarboxylating) subunit 1UniRule annotation (EC:1.4.4.2UniRule annotation)
    Alternative name(s):
    Glycine cleavage system P-protein subunit 1UniRule annotation
    Glycine decarboxylase subunit 1UniRule annotation
    Glycine dehydrogenase (aminomethyl-transferring) subunit 1UniRule annotation
    Gene namesi
    Name:gcvPAUniRule annotation
    Ordered Locus Names:DMR_31780
    OrganismiDesulfovibrio magneticus (strain ATCC 700980 / DSM 13731 / RS-1)
    Taxonomic identifieri573370 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
    ProteomesiUP000009071: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 443443Probable glycine dehydrogenase (decarboxylating) subunit 1PRO_1000212660Add
    BLAST

    Interactioni

    Subunit structurei

    The glycine cleavage system is composed of four proteins: P, T, L and H. In this organism, the P 'protein' is a heterodimer of two subunits.UniRule annotation

    Protein-protein interaction databases

    STRINGi573370.DMR_31780.

    Structurei

    3D structure databases

    ProteinModelPortaliC4XJB9.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the GcvP family. N-terminal subunit subfamily.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0403.
    HOGENOMiHOG000132025.
    KOiK00282.
    OMAiRLVGQTE.
    OrthoDBiEOG6XWV3B.

    Family and domain databases

    Gene3Di3.40.640.10. 1 hit.
    HAMAPiMF_00712. GcvPA.
    InterProiIPR023010. GcvPA.
    IPR020580. GDC-P_N.
    IPR020581. GDC_P.
    IPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    [Graphical view]
    PANTHERiPTHR11773. PTHR11773. 1 hit.
    PfamiPF02347. GDC-P. 1 hit.
    [Graphical view]
    PIRSFiPIRSF006815. GcvPA. 1 hit.
    SUPFAMiSSF53383. SSF53383. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    C4XJB9-1 [UniParc]FASTAAdd to Basket

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    MPYIPHTPAE IREMLDAVGA PDVDALFAEI PAALRPQSFD LAKGATEMAV    50
    RAAMEKLSAK NRTDLTSFLG GGFYDHYVPA ASDLLLSRGE FYTAYTPYQP 100
    EASQGTLQAI FEYQTAVCRL MDMECSNAGV YDGGTALYEA LMMAVRHTRR 150
    KKAVVSETVS PIYRIVLATY TKNLHLDLVV VPHKNGLDDF EALTAAVDGD 200
    TAAIVVQNPN FFGSVQDFTA LFDHAREKGA VSVISCYPVL QTVLKTPGAM 250
    GADIATAEGQ SLGLPLSFGG PYLGIMTCKK SLVRQMPGRI AGRTKDAAGR 300
    TGYVLTLQAR EQHIRRQKAT SNICSNQALC ALRALINLCL TGNEGLSRQA 350
    ARSIENANYA AWKLGAIPGV KLLNEAPFGN EFAAVFPVNA KQVARMLMDG 400
    GIVPGFPLGR YYQGLENALL ICCTEKHDRA DIDRLARRLE NAL 443
    Length:443
    Mass (Da):47,975
    Last modified:July 28, 2009 - v1
    Checksum:i6AB5AD920094553E
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP010904 Genomic DNA. Translation: BAH76669.1.
    RefSeqiWP_015861821.1. NC_012796.1.
    YP_002954555.1. NC_012796.1.

    Genome annotation databases

    EnsemblBacteriaiBAH76669; BAH76669; DMR_31780.
    GeneIDi7980912.
    KEGGidma:DMR_31780.
    PATRICi21752601. VBIDesMag26496_3050.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP010904 Genomic DNA. Translation: BAH76669.1 .
    RefSeqi WP_015861821.1. NC_012796.1.
    YP_002954555.1. NC_012796.1.

    3D structure databases

    ProteinModelPortali C4XJB9.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 573370.DMR_31780.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAH76669 ; BAH76669 ; DMR_31780 .
    GeneIDi 7980912.
    KEGGi dma:DMR_31780.
    PATRICi 21752601. VBIDesMag26496_3050.

    Phylogenomic databases

    eggNOGi COG0403.
    HOGENOMi HOG000132025.
    KOi K00282.
    OMAi RLVGQTE.
    OrthoDBi EOG6XWV3B.

    Enzyme and pathway databases

    BioCyci DMAG573370:GHJL-3221-MONOMER.

    Family and domain databases

    Gene3Di 3.40.640.10. 1 hit.
    HAMAPi MF_00712. GcvPA.
    InterProi IPR023010. GcvPA.
    IPR020580. GDC-P_N.
    IPR020581. GDC_P.
    IPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    [Graphical view ]
    PANTHERi PTHR11773. PTHR11773. 1 hit.
    Pfami PF02347. GDC-P. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF006815. GcvPA. 1 hit.
    SUPFAMi SSF53383. SSF53383. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Whole genome sequence of Desulfovibrio magneticus strain RS-1 revealed common gene clusters in magnetotactic bacteria."
      Nakazawa H., Arakaki A., Narita-Yamada S., Yashiro I., Jinno K., Aoki N., Tsuruyama A., Okamura Y., Tanikawa S., Fujita N., Takeyama H., Matsunaga T.
      Genome Res. 19:1801-1808(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 700980 / DSM 13731 / RS-1.

    Entry informationi

    Entry nameiGCSPA_DESMR
    AccessioniPrimary (citable) accession number: C4XJB9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 22, 2009
    Last sequence update: July 28, 2009
    Last modified: October 1, 2014
    This is version 36 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