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Q9PDJ4

- GCSP_XYLFA

UniProt

Q9PDJ4 - GCSP_XYLFA

Protein

Glycine dehydrogenase (decarboxylating)

Gene

gcvP

Organism
Xylella fastidiosa (strain 9a5c)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 74 (01 Oct 2014)
      Sequence version 1 (01 Oct 2000)
      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

    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:XF_1385
    OrganismiXylella fastidiosa (strain 9a5c)
    Taxonomic identifieri160492 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXylella
    ProteomesiUP000000812: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 993993Glycine dehydrogenase (decarboxylating)PRO_0000166950Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei715 – 7151N6-(pyridoxal phosphate)lysineUniRule annotation

    Interactioni

    Subunit structurei

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

    Protein-protein interaction databases

    STRINGi160492.XF1385.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9PDJ4.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the GcvP family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG1003.
    KOiK00281.
    OMAiAELMPVS.
    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.

    Q9PDJ4-1 [UniParc]FASTAAdd to Basket

    « Hide

    MFSVSHFCSG SLMMSHTLSS LRDLEYQGAF VERHIGPNDV EIAQMLRVVG    50
    YDSLESLTDA IVPEKIRSTV ALDLPKGITE EEALAKIRVI ANKNRVFRSF 100
    IGQGYYGTHT PKVILRNVLE NPAWYTAYTP YQAEISQGRM EALINFQTMC 150
    ADLTGMEIAN ASLLDEATAA AEAMSLAKRS AKSRSDLFFV HDAVHPQTLE 200
    LLRTRAEPLG IVLRVGTPEE ALQADVFGIL LQYPDTFGRI GDHRVLADAV 250
    HARGGLVAVA SDLLALTLIT PPGEWGADIV VGNSQRFGVP FGFGGPHAGF 300
    MACRDIYKRS IPGRLIGVSV DAAGHPAYRL ALQTREQHIR REKATSNICT 350
    AQVLLAVMAS MYAVYHGPQG LLRIAWRTHR MAAILAAALR GAGLTVGEYF 400
    FDTLHIVGID AVAIHCAAAA AGMNLRMIDN AQLGISLDET VTRSDVVALG 450
    QVFGVQVDVE ALDAITADAL PAGLLRSSAF LTHPVFNTHH SEHELLRYLR 500
    MLADKDLAMD RTMIPLGSCT MKLNATAEMI PVTWQEFACI HPLAPAVQWS 550
    GYRQLIDELE AMLAECTGYD AISLQPNSGA QGEYAGLLAI RAYHRSRGEE 600
    RRNVCLIPES AHGTNPASAQ LCGMQVVIIK CDRSGNVDVD DLRMKAEKYS 650
    DSLAALMVTY PSTHGVFEEA ITEICEIVHA HGGQVYTDGA NMNALVGVAK 700
    PGRWGSDVSH LNLHKTFCIP HGGGGPGVGP CAVKAHLAPF LPKTLPLPGD 750
    AAGLPVQGTQ EAKVGMVSAA NFGSASILPV SWMYITMMGA AGLRKATQVA 800
    LLNANYIAKR LAPHYKTLYT GRHGLVAHEC ILDVRPLEKV SGVSAEDIAK 850
    RLIDFGFHAP TLSFPVAGTL MVEPTESESQ QELDRFVDAM IQIRGEIAAI 900
    EKGHLDPEDN PLKQAPHTAV QVMASQWGHA YSRELAAFPL GVLHHAKYWP 950
    PVARVDNVYG DKHVMCACIP VEAYKEKEDS EIQHLIEEDA SRC 993
    Length:993
    Mass (Da):107,648
    Last modified:October 1, 2000 - v1
    Checksum:i118088B388967C46
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE003849 Genomic DNA. Translation: AAF84194.1.
    PIRiC82687.
    RefSeqiNP_298674.1. NC_002488.3.

    Genome annotation databases

    EnsemblBacteriaiAAF84194; AAF84194; XF_1385.
    GeneIDi1126931.
    KEGGixfa:XF1385.
    PATRICi24132871. VBIXylFas578_1464.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE003849 Genomic DNA. Translation: AAF84194.1 .
    PIRi C82687.
    RefSeqi NP_298674.1. NC_002488.3.

    3D structure databases

    ProteinModelPortali Q9PDJ4.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 160492.XF1385.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAF84194 ; AAF84194 ; XF_1385 .
    GeneIDi 1126931.
    KEGGi xfa:XF1385.
    PATRICi 24132871. VBIXylFas578_1464.

    Phylogenomic databases

    eggNOGi COG1003.
    KOi K00281.
    OMAi AELMPVS.
    OrthoDBi EOG6HMXDX.

    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. "The genome sequence of the plant pathogen Xylella fastidiosa."
      Simpson A.J.G., Reinach F.C., Arruda P., Abreu F.A., Acencio M., Alvarenga R., Alves L.M.C., Araya J.E., Baia G.S., Baptista C.S., Barros M.H., Bonaccorsi E.D., Bordin S., Bove J.M., Briones M.R.S., Bueno M.R.P., Camargo A.A., Camargo L.E.A.
      , Carraro D.M., Carrer H., Colauto N.B., Colombo C., Costa F.F., Costa M.C.R., Costa-Neto C.M., Coutinho L.L., Cristofani M., Dias-Neto E., Docena C., El-Dorry H., Facincani A.P., Ferreira A.J.S., Ferreira V.C.A., Ferro J.A., Fraga J.S., Franca S.C., Franco M.C., Frohme M., Furlan L.R., Garnier M., Goldman G.H., Goldman M.H.S., Gomes S.L., Gruber A., Ho P.L., Hoheisel J.D., Junqueira M.L., Kemper E.L., Kitajima J.P., Krieger J.E., Kuramae E.E., Laigret F., Lambais M.R., Leite L.C.C., Lemos E.G.M., Lemos M.V.F., Lopes S.A., Lopes C.R., Machado J.A., Machado M.A., Madeira A.M.B.N., Madeira H.M.F., Marino C.L., Marques M.V., Martins E.A.L., Martins E.M.F., Matsukuma A.Y., Menck C.F.M., Miracca E.C., Miyaki C.Y., Monteiro-Vitorello C.B., Moon D.H., Nagai M.A., Nascimento A.L.T.O., Netto L.E.S., Nhani A. Jr., Nobrega F.G., Nunes L.R., Oliveira M.A., de Oliveira M.C., de Oliveira R.C., Palmieri D.A., Paris A., Peixoto B.R., Pereira G.A.G., Pereira H.A. Jr., Pesquero J.B., Quaggio R.B., Roberto P.G., Rodrigues V., de Rosa A.J.M., de Rosa V.E. Jr., de Sa R.G., Santelli R.V., Sawasaki H.E., da Silva A.C.R., da Silva A.M., da Silva F.R., Silva W.A. Jr., da Silveira J.F., Silvestri M.L.Z., Siqueira W.J., de Souza A.A., de Souza A.P., Terenzi M.F., Truffi D., Tsai S.M., Tsuhako M.H., Vallada H., Van Sluys M.A., Verjovski-Almeida S., Vettore A.L., Zago M.A., Zatz M., Meidanis J., Setubal J.C.
      Nature 406:151-159(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: 9a5c.

    Entry informationi

    Entry nameiGCSP_XYLFA
    AccessioniPrimary (citable) accession number: Q9PDJ4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 19, 2003
    Last sequence update: October 1, 2000
    Last modified: October 1, 2014
    This is version 74 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