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I3RER9

- I3RER9_9EURY

UniProt

I3RER9 - I3RER9_9EURY

Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

Organism
Pyrococcus sp. ST04
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 17 (01 Oct 2014)
      Sequence version 1 (05 Sep 2012)
      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 sitei155 – 1551Proton acceptorUniRule annotation
    Binding sitei157 – 1571SubstrateUniRule annotation
    Metal bindingi181 – 1811Magnesium; via carbamate groupUniRule annotation
    Metal bindingi183 – 1831MagnesiumUniRule annotation
    Metal bindingi184 – 1841MagnesiumUniRule annotation
    Active sitei273 – 2731Proton acceptorUniRule annotation
    Binding sitei274 – 2741SubstrateUniRule annotation
    Binding sitei306 – 3061SubstrateUniRule annotation
    Sitei313 – 3131Transition 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

    BioCyciPSP1183377:GLJ2-1183-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
    ORF Names:Py04_1155Imported
    OrganismiPyrococcus sp. ST04Imported
    Taxonomic identifieri1183377 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
    ProteomesiUP000006467: Chromosome

    PTM / Processingi

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei181 – 1811N6-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

    ProteinModelPortaliI3RER9.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni343 – 3453Substrate bindingUniRule annotation
    Regioni365 – 3684Substrate bindingUniRule annotation

    Sequence similaritiesi

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

    Phylogenomic databases

    KOiK01601.

    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.

    I3RER9-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKVEWYLDFV DLEYSPGRDE LIVEYYFEPN GVSPEEAAGR IASESSIGTW    50
    TTLWKMPEMA KRSMAKVFYL EKKGDGYIAK IAYPLTLFEE GSLVQLFSAI 100
    AGNIFGMKAI KNLRLLDFHP PYEYLRHFRG PQYGVNGIRE FMGVHDRPLT 150
    ATVPKPKMGW SVEEYAEIAY ELWSGGIDLL KDDENFTSFP FNRFEERVRK 200
    LYRVRDRVEA ETGETKEYLI NITGPVNVME KRAEMVANEG GQYVMIDIVV 250
    AGWSALQYMR EVTEDLGLAI HAHRAMHAAF TRNPKHGITM LALAKAARMI 300
    GVDQIHTGTA VGKMAGDYEE IKRINDFLLS RWEHIRPVFP VASGGLHPGL 350
    MPELIRLFGK DLVIQAGGGV MGHPDGPKAG AKALRDAIEA AVDGIDLEEK 400
    AKSSPELRKA LDKWGYLKPK 420
    Length:420
    Mass (Da):47,262
    Last modified:September 5, 2012 - v1
    Checksum:i85885F42443D3B99
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP003534 Genomic DNA. Translation: AFK22729.1.
    RefSeqiWP_014734253.1. NC_017946.1.
    YP_006354804.1. NC_017946.1.

    Genome annotation databases

    EnsemblBacteriaiAFK22729; AFK22729; Py04_1155.
    GeneIDi13022403.
    KEGGipys:Py04_1155.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP003534 Genomic DNA. Translation: AFK22729.1 .
    RefSeqi WP_014734253.1. NC_017946.1.
    YP_006354804.1. NC_017946.1.

    3D structure databases

    ProteinModelPortali I3RER9.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AFK22729 ; AFK22729 ; Py04_1155 .
    GeneIDi 13022403.
    KEGGi pys:Py04_1155.

    Phylogenomic databases

    KOi K01601.

    Enzyme and pathway databases

    BioCyci PSP1183377:GLJ2-1183-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 Hyperthermophilic Archaeon Pyrococcus sp. Strain ST04, Isolated from a Deep-Sea Hydrothermal Sulfide Chimney on the Juan de Fuca Ridge."
      Jung J.H., Lee J.H., Holden J.F., Seo D.H., Shin H., Kim H.Y., Kim W., Ryu S., Park C.S.
      J. Bacteriol. 194:4434-4435(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ST04Imported.

    Entry informationi

    Entry nameiI3RER9_9EURY
    AccessioniPrimary (citable) accession number: I3RER9
    Entry historyi
    Integrated into UniProtKB/TrEMBL: September 5, 2012
    Last sequence update: September 5, 2012
    Last modified: October 1, 2014
    This is version 17 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