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Q5JGX6

- GCSPB_THEKO

UniProt

Q5JGX6 - GCSPB_THEKO

Protein

Probable glycine dehydrogenase (decarboxylating) subunit 2

Gene

gcvPB

Organism
Thermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 64 (01 Oct 2014)
      Sequence version 1 (15 Feb 2005)
      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

    BioCyciTKOD69014:GH72-1400-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Probable glycine dehydrogenase (decarboxylating) subunit 2UniRule annotation (EC:1.4.4.2UniRule annotation)
    Alternative name(s):
    Glycine cleavage system P-protein subunit 2UniRule annotation
    Glycine decarboxylase subunit 2UniRule annotation
    Glycine dehydrogenase (aminomethyl-transferring) subunit 2UniRule annotation
    Gene namesi
    Name:gcvPBUniRule annotation
    Ordered Locus Names:TK1379
    OrganismiThermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
    Taxonomic identifieri69014 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus
    ProteomesiUP000000536: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 502502Probable glycine dehydrogenase (decarboxylating) subunit 2PRO_0000167030Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei273 – 2731N6-(pyridoxal phosphate)lysineUniRule annotation

    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

    IntActiQ5JGX6. 1 interaction.
    MINTiMINT-8376968.
    STRINGi69014.TK1379.

    Structurei

    3D structure databases

    ProteinModelPortaliQ5JGX6.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG1003.
    HOGENOMiHOG000239368.
    KOiK00283.
    OMAiWTGLMMI.

    Family and domain databases

    Gene3Di3.40.640.10. 1 hit.
    HAMAPiMF_00713. GcvPB.
    InterProiIPR020580. GDC-P_N.
    IPR020581. GDC_P.
    IPR023012. GDC_P_su2.
    IPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    [Graphical view]
    PANTHERiPTHR11773. PTHR11773. 1 hit.
    PfamiPF02347. GDC-P. 1 hit.
    [Graphical view]
    SUPFAMiSSF53383. SSF53383. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q5JGX6-1 [UniParc]FASTAAdd to Basket

    « Hide

    MFHQAKWDEP TIFELSRPGR IGYTLPKPIE DVDVDIPEKL RRKSPLNLPE    50
    LSEPEVVKHY TRLSEMNYGV DSGIYPLGSC TMKYNPKINE EIASHPGVAY 100
    VHPYQDEGTV QGALKIMWEL EQWLKEITGM DRFTLQPAAG ANGEFTGVSI 150
    IRAYHIDRGE TQRTEMLVPD SAHGTNPASA AMAGFKVIEI PSNENGTVDL 200
    EALENAVSER TAGLMLTNPN TLGIFEDEIL EIAKIVHKAG GLLYYDGANL 250
    NAVLGKIRPG DMGFDVVHLN LHKTFSTPHG GGGPGSGPVG VKDFLKDYLP 300
    VPLVSYDAEN DRYYLDYNVP RSIGKVKELY GNFAVIVRAL TYLKIMGREG 350
    LKEVSEVAVL NANYLTQKLK GTRGYELPGK ELRKHETVFS AEPMKKETGV 400
    KALDVAKRLL DFCMHAPTIY FPLIVHEALM IEPTETVSKE ELDAYVEALK 450
    RISEEAYSNP EVVTSAPHNT AVRRVDDVLA AKKPVITWRM YRELKERGEI 500
    DY 502
    Length:502
    Mass (Da):55,991
    Last modified:February 15, 2005 - v1
    Checksum:iAFE4AC2931468554
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006878 Genomic DNA. Translation: BAD85568.1.
    RefSeqiYP_183792.1. NC_006624.1.

    Genome annotation databases

    EnsemblBacteriaiBAD85568; BAD85568; TK1379.
    GeneIDi3235783.
    KEGGitko:TK1379.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006878 Genomic DNA. Translation: BAD85568.1 .
    RefSeqi YP_183792.1. NC_006624.1.

    3D structure databases

    ProteinModelPortali Q5JGX6.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi Q5JGX6. 1 interaction.
    MINTi MINT-8376968.
    STRINGi 69014.TK1379.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAD85568 ; BAD85568 ; TK1379 .
    GeneIDi 3235783.
    KEGGi tko:TK1379.

    Phylogenomic databases

    eggNOGi COG1003.
    HOGENOMi HOG000239368.
    KOi K00283.
    OMAi WTGLMMI.

    Enzyme and pathway databases

    BioCyci TKOD69014:GH72-1400-MONOMER.

    Family and domain databases

    Gene3Di 3.40.640.10. 1 hit.
    HAMAPi MF_00713. GcvPB.
    InterProi IPR020580. GDC-P_N.
    IPR020581. GDC_P.
    IPR023012. GDC_P_su2.
    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 ]
    SUPFAMi SSF53383. SSF53383. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes."
      Fukui T., Atomi H., Kanai T., Matsumi R., Fujiwara S., Imanaka T.
      Genome Res. 15:352-363(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC BAA-918 / JCM 12380 / KOD1.

    Entry informationi

    Entry nameiGCSPB_THEKO
    AccessioniPrimary (citable) accession number: Q5JGX6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: August 30, 2005
    Last sequence update: February 15, 2005
    Last modified: October 1, 2014
    This is version 64 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