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I3XT42

- I3XT42_9CREN

UniProt

I3XT42 - I3XT42_9CREN

Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

Organism
Desulfurococcus fermentans DSM 16532
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 16 (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 sitei164 – 1641Proton acceptorUniRule annotation
    Binding sitei166 – 1661SubstrateUniRule annotation
    Metal bindingi190 – 1901Magnesium; via carbamate groupUniRule annotation
    Metal bindingi192 – 1921MagnesiumUniRule annotation
    Metal bindingi193 – 1931MagnesiumUniRule annotation
    Active sitei282 – 2821Proton acceptorUniRule annotation
    Binding sitei283 – 2831SubstrateUniRule annotation
    Binding sitei315 – 3151SubstrateUniRule annotation
    Sitei323 – 3231Transition 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

    BioCyciDFER768672:GLCL-1285-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:Desfe_1247Imported
    OrganismiDesulfurococcus fermentans DSM 16532Imported
    Taxonomic identifieri768672 [NCBI]
    Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiDesulfurococcalesDesulfurococcaceaeDesulfurococcus
    ProteomesiUP000006175: Chromosome

    PTM / Processingi

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei190 – 1901N6-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

    ProteinModelPortaliI3XT42.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni368 – 3703Substrate bindingUniRule annotation
    Regioni390 – 3934Substrate 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.

    I3XT42-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSGKFEFETY HEYIDKNYTP DPSNDVIAVY RVKPAQGFTI EDAAGGVAAE    50
    SSTGTWTSLY NWYDVGRVRR LSGKAYYFKD LGDGSWIVKI AYPVELFEEG 100
    NIPGLLASIA GNIFGMKRVE GLRLEDIYLP KKFLESFKGP SKGLNGVREI 150
    FGIKDRPIVG TVPKPKEGYS PEEVEKLALE LLSGGLDYIK DDENLTSPSF 200
    CRFEARAKAI MKVIDKVEKE TGERKVWFAN ITSDIREMER RLRLVADYGN 250
    PYIMVDVVIA GWSALTYIRD LAEEYGLAIH GHRAMHAAFT RNPYHGISMY 300
    VLAKLYRIIG IDQLHIGTAG AGKLEGGKLD VVRYAKILRE THFKPDPDDI 350
    YHLEQPMHHI KPAMPVSSGG LHPGNLPPVI EALGTNLVLQ IGGGVIGHPD 400
    GPRAGALAVR QALEAIMNNI PLDEYAKTHR ELARALEKWG FVKPI 445
    Length:445
    Mass (Da):49,514
    Last modified:September 5, 2012 - v1
    Checksum:i8D9CB8CBA1CB7A78
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP003321 Genomic DNA. Translation: AFL67116.1.
    RefSeqiWP_014768010.1. NC_018001.1.
    YP_006402691.1. NC_018001.1.

    Genome annotation databases

    EnsemblBacteriaiAFL67116; AFL67116; Desfe_1247.
    GeneIDi13061643.
    KEGGidfd:Desfe_1247.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP003321 Genomic DNA. Translation: AFL67116.1 .
    RefSeqi WP_014768010.1. NC_018001.1.
    YP_006402691.1. NC_018001.1.

    3D structure databases

    ProteinModelPortali I3XT42.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AFL67116 ; AFL67116 ; Desfe_1247 .
    GeneIDi 13061643.
    KEGGi dfd:Desfe_1247.

    Phylogenomic databases

    KOi K01601.

    Enzyme and pathway databases

    BioCyci DFER768672:GLCL-1285-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 Desulfurococcus fermentans, a Hyperthermophilic Cellulolytic Crenarchaeon Isolated from a Freshwater Hot Spring in Kamchatka, Russia."
      Susanti D., Johnson E.F., Rodriguez J.R., Anderson I., Perevalova A.A., Kyrpides N., Lucas S., Han J., Lapidus A., Cheng J.F., Goodwin L., Pitluck S., Mavrommatis K., Peters L., Land M.L., Hauser L., Gopalan V., Chan P.P.
      , Lowe T.M., Atomi H., Bonch-Osmolovskaya E.A., Woyke T., Mukhopadhyay B.
      J. Bacteriol. 194:5703-5704(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: DSM 16532Imported.

    Entry informationi

    Entry nameiI3XT42_9CREN
    AccessioniPrimary (citable) accession number: I3XT42
    Entry historyi
    Integrated into UniProtKB/TrEMBL: September 5, 2012
    Last sequence update: September 5, 2012
    Last modified: October 1, 2014
    This is version 16 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