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F8AF48

- F8AF48_PYRYC

UniProt

F8AF48 - F8AF48_PYRYC

Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

Organism
Pyrococcus yayanosii (strain CH1 / JCM 16557)
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 19 (01 Oct 2014)
      Sequence version 1 (21 Sep 2011)
      Previous versions | rss
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    Functioni

    Catalyzes the addition of molecular CO2 and H2O to ribulose 1,5-bisphosphate (RuBP), generating two molecules of 3-phosphoglycerate (3-PGA). Functions in an archaeal AMP degradation pathway, together with AMP phosphorylase and R15P isomerase.UniRule annotation

    Catalytic activityi

    2 3-phospho-D-glycerate + 2 H+ = D-ribulose 1,5-bisphosphate + CO2 + H2O.UniRule annotation
    3-phospho-D-glycerate + 2-phosphoglycolate = D-ribulose 1,5-bisphosphate + O2.UniRule annotation

    Cofactori

    Binds 1 magnesium ion per subunit.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei156 – 1561Proton acceptorUniRule annotation
    Binding sitei158 – 1581SubstrateUniRule annotation
    Metal bindingi182 – 1821Magnesium; via carbamate groupUniRule annotation
    Metal bindingi184 – 1841MagnesiumUniRule annotation
    Metal bindingi185 – 1851MagnesiumUniRule annotation
    Active sitei274 – 2741Proton acceptorUniRule annotation
    Binding sitei275 – 2751SubstrateUniRule annotation
    Binding sitei307 – 3071SubstrateUniRule annotation
    Sitei314 – 3141Transition state stabilizerUniRule annotation

    GO - Molecular functioni

    1. magnesium ion binding Source: UniProtKB-HAMAP
    2. oxidoreductase activity Source: UniProtKB-KW
    3. ribulose-bisphosphate carboxylase activity Source: UniProtKB-HAMAP

    GO - Biological processi

    1. AMP catabolic process Source: UniProtKB-HAMAP
    2. carbon fixation Source: UniProtKB-KW

    Keywords - Molecular functioni

    LyaseUniRule annotation, OxidoreductaseUniRule annotation

    Keywords - Biological processi

    Carbon dioxide fixationUniRule annotation

    Keywords - Ligandi

    MagnesiumUniRule annotation, Metal-bindingUniRule annotation

    Enzyme and pathway databases

    BioCyciPYAY529709:GHZ0-9-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribulose bisphosphate carboxylaseUniRule annotation (EC:4.1.1.39UniRule annotation)
    Short name:
    RuBisCOUniRule annotation
    Gene namesi
    Name:rbcLUniRule annotation
    Ordered Locus Names:PYCH_00090Imported
    OrganismiPyrococcus yayanosii (strain CH1 / JCM 16557)Imported
    Taxonomic identifieri529709 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
    ProteomesiUP000008386: Chromosome

    PTM / Processingi

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei182 – 1821N6-carboxylysineUniRule annotation

    Interactioni

    Subunit structurei

    Homodimer or homodecamer. In contrast to form I RuBisCO, the form III RuBisCO is composed solely of large subunits.UniRule annotation

    Structurei

    3D structure databases

    ProteinModelPortaliF8AF48.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni344 – 3463Substrate bindingUniRule annotation
    Regioni366 – 3694Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the RuBisCO large chain family. Type III subfamily.UniRule annotation

    Phylogenomic databases

    KOiK01601.
    OMAiIFRESHY.

    Family and domain databases

    Gene3Di3.20.20.110. 1 hit.
    3.30.70.150. 1 hit.
    HAMAPiMF_01133. RuBisCO_L_type3.
    InterProiIPR017712. RuBisCO_III.
    IPR000685. RuBisCO_lsu_C.
    IPR017443. RuBisCO_lsu_fd_N.
    IPR017444. RuBisCO_lsu_N.
    [Graphical view]
    PfamiPF00016. RuBisCO_large. 1 hit.
    PF02788. RuBisCO_large_N. 1 hit.
    [Graphical view]
    SUPFAMiSSF51649. SSF51649. 1 hit.
    SSF54966. SSF54966. 1 hit.
    TIGRFAMsiTIGR03326. rubisco_III. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    F8AF48-1 [UniParc]FASTAAdd to Basket

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    MSKVEWYLDF VDLDYTPGRD ELIVEYYFEP NGVSPEEAAG RIASESSIGT    50
    WTTLWKLPDM AKRSMAKVFS LEKSGEGYIA KIAYPLTLFE EGNLVQLFSA 100
    IAGNIFGMKA LKNLRLLDFH PPYEYLRHFK GPQYGVKGIR EFMGIEDRPL 150
    TATVPKPKMG WSVDEYAEIA YELWSGGIDL LKDDENFTSF PFNRFEERVR 200
    KLYAVRDRVE AETGETKEYL INITGPAHVM EKRAQLVAAE GGQYIMIDIV 250
    VVGWSALQYM REVAEDLGLA IHAHRAMHAA FTRNPRHGIS MFVLAKAARM 300
    VGVDQIHTGT AVGKMAGDYE EVKRINGFLL SEWEHIKPIF PVASGGLHPG 350
    LMPELIRLFG RDLVIQVGGG VMGHPDGPRA GAKALRDAIE AAIEGVSLEE 400
    KAKESPELKK ALEKWGYLKP K 421
    Length:421
    Mass (Da):47,126
    Last modified:September 21, 2011 - v1
    Checksum:iDC4D0153E37B1599
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP002779 Genomic DNA. Translation: AEH23722.1.
    RefSeqiYP_004622994.1. NC_015680.1.

    Genome annotation databases

    EnsemblBacteriaiAEH23722; AEH23722; PYCH_00090.
    GeneIDi10836592.
    KEGGipya:PYCH_00090.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP002779 Genomic DNA. Translation: AEH23722.1 .
    RefSeqi YP_004622994.1. NC_015680.1.

    3D structure databases

    ProteinModelPortali F8AF48.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AEH23722 ; AEH23722 ; PYCH_00090 .
    GeneIDi 10836592.
    KEGGi pya:PYCH_00090.

    Phylogenomic databases

    KOi K01601.
    OMAi IFRESHY.

    Enzyme and pathway databases

    BioCyci PYAY529709:GHZ0-9-MONOMER.

    Family and domain databases

    Gene3Di 3.20.20.110. 1 hit.
    3.30.70.150. 1 hit.
    HAMAPi MF_01133. RuBisCO_L_type3.
    InterProi IPR017712. RuBisCO_III.
    IPR000685. RuBisCO_lsu_C.
    IPR017443. RuBisCO_lsu_fd_N.
    IPR017444. RuBisCO_lsu_N.
    [Graphical view ]
    Pfami PF00016. RuBisCO_large. 1 hit.
    PF02788. RuBisCO_large_N. 1 hit.
    [Graphical view ]
    SUPFAMi SSF51649. SSF51649. 1 hit.
    SSF54966. SSF54966. 1 hit.
    TIGRFAMsi TIGR03326. rubisco_III. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Complete genome sequence of the obligate piezophilic hyperthermophilic archaeon Pyrococcus yayanosii CH1."
      Jun X., Lupeng L., Minjuan X., Oger P., Fengping W., Jebbar M., Xiang X.
      J. Bacteriol. 193:4297-4298(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: CH1 / JCM 16557Imported.

    Entry informationi

    Entry nameiF8AF48_PYRYC
    AccessioniPrimary (citable) accession number: F8AF48
    Entry historyi
    Integrated into UniProtKB/TrEMBL: September 21, 2011
    Last sequence update: September 21, 2011
    Last modified: October 1, 2014
    This is version 19 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiUnreviewed (UniProtKB/TrEMBL)

    Miscellaneousi

    Miscellaneous

    Because the Archaea possessing a type III RuBisCO are all anaerobic, it is most likely that only the carboxylase activity of RuBisCO, and not the competitive oxygenase activity (by which RuBP reacts with O2 to form one molecule of 3-phosphoglycerate and one molecule of 2-phosphoglycolate), is biologically relevant in these strains.UniRule annotation

    Keywords - Technical termi

    Complete proteomeImported

    External Data

    Dasty 3