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B4SB96

- GCSPB_PELPB

UniProt

B4SB96 - GCSPB_PELPB

Protein

Probable glycine dehydrogenase (decarboxylating) subunit 2

Gene

gcvPB

Organism
Pelodictyon phaeoclathratiforme (strain DSM 5477 / BU-1)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 42 (01 Oct 2014)
      Sequence version 1 (23 Sep 2008)
      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

    BioCyciPPHA324925:GHBF-190-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:Ppha_0179
    OrganismiPelodictyon phaeoclathratiforme (strain DSM 5477 / BU-1)
    Taxonomic identifieri324925 [NCBI]
    Taxonomic lineageiBacteriaChlorobiChlorobiaChlorobialesChlorobiaceaeChlorobium/Pelodictyon groupPelodictyon
    ProteomesiUP000002724: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 482482Probable glycine dehydrogenase (decarboxylating) subunit 2PRO_1000132503Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei269 – 2691N6-(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

    STRINGi324925.Ppha_0179.

    Structurei

    3D structure databases

    ProteinModelPortaliB4SB96.
    SMRiB4SB96. Positions 4-478.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG1003.
    HOGENOMiHOG000239368.
    KOiK00283.
    OMAiKPVMHEF.
    OrthoDBiEOG6HMXDX.

    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.

    B4SB96-1 [UniParc]FASTAAdd to Basket

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    MREKLIFELS RKGRKGYSLS GNELPEQPLE NIIPSKYLRT TPAELPEVAE    50
    SEVVRHFVRL SNLNYHVDKN MYPLGSCTMK YNPKINDYTC DLPGFSALHP 100
    LQPGETTQGA LQLMFELAEM LREIAGMAAV TLQPAAGAHG ELTGILLIKK 150
    YHESIGSKRH KLLVVDSAHG TNPASAALAG YDIISVKGNA DGRTDLDDLR 200
    SKLDGDVAAL MLTNPNTIGL FETEILAISK MVHDNGSLLY MDGANMNALL 250
    GITRPGDMGF DVVHYNLHKT FAAPHGGGGP GSGPVGVSEK LIPFLLVPVI 300
    VKEGTTYKLS YDRPESIGRM MNFYGNFAVL VRAYTYIRML GPDGLRRVSE 350
    NAIINANYLL SLLLESYDLP YPKPVMHEFC LSGDRQKKAH GVKTLDIAKR 400
    LLDYGFHAPT IYFPLIVSEA LMIEPTETES KETLDVFAQA LLSIADEAAN 450
    NPALVTSAPV TTPVKRLDDA MASRQLNICC SL 482
    Length:482
    Mass (Da):52,734
    Last modified:September 23, 2008 - v1
    Checksum:iFB92B9F264D0EBEE
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001110 Genomic DNA. Translation: ACF42517.1.
    RefSeqiYP_002017134.1. NC_011060.1.

    Genome annotation databases

    EnsemblBacteriaiACF42517; ACF42517; Ppha_0179.
    GeneIDi6462296.
    KEGGipph:Ppha_0179.
    PATRICi22900782. VBIPelPha134556_0188.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001110 Genomic DNA. Translation: ACF42517.1 .
    RefSeqi YP_002017134.1. NC_011060.1.

    3D structure databases

    ProteinModelPortali B4SB96.
    SMRi B4SB96. Positions 4-478.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 324925.Ppha_0179.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACF42517 ; ACF42517 ; Ppha_0179 .
    GeneIDi 6462296.
    KEGGi pph:Ppha_0179.
    PATRICi 22900782. VBIPelPha134556_0188.

    Phylogenomic databases

    eggNOGi COG1003.
    HOGENOMi HOG000239368.
    KOi K00283.
    OMAi KPVMHEF.
    OrthoDBi EOG6HMXDX.

    Enzyme and pathway databases

    BioCyci PPHA324925:GHBF-190-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 sequence of Pelodictyon phaeoclathratiforme BU-1."
      US DOE Joint Genome Institute
      Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Liu Z., Li T., Zhao F.
      , Overmann J., Bryant D.A., Richardson P.
      Submitted (JUN-2008) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: DSM 5477 / BU-1.

    Entry informationi

    Entry nameiGCSPB_PELPB
    AccessioniPrimary (citable) accession number: B4SB96
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 14, 2009
    Last sequence update: September 23, 2008
    Last modified: October 1, 2014
    This is version 42 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