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D3S3X8

- D3S3X8_METSF

UniProt

D3S3X8 - D3S3X8_METSF

Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

Organism
Methanocaldococcus sp. (strain FS406-22)
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 32 (01 Oct 2014)
      Sequence version 1 (20 Apr 2010)
      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 sitei153 – 1531Proton acceptorUniRule annotation
    Binding sitei155 – 1551SubstrateUniRule annotation
    Metal bindingi179 – 1791Magnesium; via carbamate groupUniRule annotation
    Metal bindingi181 – 1811MagnesiumUniRule annotation
    Metal bindingi182 – 1821MagnesiumUniRule annotation
    Active sitei269 – 2691Proton acceptorUniRule annotation
    Binding sitei270 – 2701SubstrateUniRule annotation
    Binding sitei302 – 3021SubstrateUniRule annotation
    Sitei309 – 3091Transition 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 annotationImported, OxidoreductaseUniRule annotation

    Keywords - Biological processi

    Carbon dioxide fixationUniRule annotation

    Keywords - Ligandi

    MagnesiumUniRule annotation, Metal-bindingUniRule annotation

    Enzyme and pathway databases

    BioCyciMSP644281:GI4H-868-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:MFS40622_0859Imported
    OrganismiMethanocaldococcus sp. (strain FS406-22)Imported
    Taxonomic identifieri644281 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaMethanococciMethanococcalesMethanocaldococcaceaeMethanocaldococcus
    ProteomesiUP000002189: Chromosome

    PTM / Processingi

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei179 – 1791N6-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

    ProteinModelPortaliD3S3X8.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni353 – 3553Substrate bindingUniRule annotation
    Regioni375 – 3784Substrate bindingUniRule annotation

    Sequence similaritiesi

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

    Phylogenomic databases

    HOGENOMiHOG000230831.
    KOiK01601.
    OMAiVIVTFRV.

    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.

    D3S3X8-1 [UniParc]FASTAAdd to Basket

    « Hide

    MDYINLNYTP NENDLLSCMI IKGENLEKLA NEIAGESSIG TWTKVQTMKS    50
    DIYEKLRPKV YEIKEIGNDG KYKVGLIKIA YPLYDFEINN MPGVLAGIAG 100
    NIFGMKIAKG LRILDFRFPE EFVKAYKGPR FGIEGVRETL KIKERPLLGT 150
    IVKPKVGLKT EEHAKVAYEA WVGGVDLVKD DENLTSQEFN KFEDRIYKTL 200
    EMRDKAEEET GERKAYMPNI TAPYREMIRR VEIAEDAGSE YVMIDVVVCG 250
    FSAVQSFREE EFKFIIHAHR AMHAAMTRSR DFGISMLVLA KIYRLLGVDQ 300
    LHIGTVVGKM EGGEKEVKSI RDEIVCDKVE ADDENKFFNQ EWFDIKPVFP 350
    VSSGGVHPRL VPKIVEILGR DLIIQAGGGV HGHPDGTRAG AKAMRAAIEA 400
    IIEGKSLEEK AEEVAELKKA LEYWK 425
    Length:425
    Mass (Da):47,959
    Last modified:April 20, 2010 - v1
    Checksum:iB582FABD358CCCCA
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001901 Genomic DNA. Translation: ADC69542.1.
    RefSeqiWP_012980451.1. NC_013887.1.
    YP_003458278.1. NC_013887.1.

    Genome annotation databases

    EnsemblBacteriaiADC69542; ADC69542; MFS40622_0859.
    GeneIDi8804702.
    KEGGimfs:MFS40622_0859.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001901 Genomic DNA. Translation: ADC69542.1 .
    RefSeqi WP_012980451.1. NC_013887.1.
    YP_003458278.1. NC_013887.1.

    3D structure databases

    ProteinModelPortali D3S3X8.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ADC69542 ; ADC69542 ; MFS40622_0859 .
    GeneIDi 8804702.
    KEGGi mfs:MFS40622_0859.

    Phylogenomic databases

    HOGENOMi HOG000230831.
    KOi K01601.
    OMAi VIVTFRV.

    Enzyme and pathway databases

    BioCyci MSP644281:GI4H-868-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 sequence of chromosome of Methanocaldococcus sp. FS406-22."
      US DOE Joint Genome Institute
      Lucas S., Copeland A., Lapidus A., Cheng J.-F., Bruce D., Goodwin L., Pitluck S., Teshima H., Detter J.C., Han C., Tapia R., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Sieprawska-Lupa M., Leigh J., Whitman W.B., Woyke T.
      Submitted (FEB-2010) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: FS406-22Imported.

    Entry informationi

    Entry nameiD3S3X8_METSF
    AccessioniPrimary (citable) accession number: D3S3X8
    Entry historyi
    Integrated into UniProtKB/TrEMBL: April 20, 2010
    Last sequence update: April 20, 2010
    Last modified: October 1, 2014
    This is version 32 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