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A3DND9

- A3DND9_STAMF

UniProt

A3DND9 - A3DND9_STAMF

Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

Organism
Staphylothermus marinus (strain ATCC 43588 / DSM 3639 / F1)
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 52 (01 Oct 2014)
      Sequence version 1 (20 Mar 2007)
      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 sitei162 – 1621Proton acceptorUniRule annotation
    Binding sitei164 – 1641SubstrateUniRule annotation
    Metal bindingi188 – 1881Magnesium; via carbamate groupUniRule annotation
    Metal bindingi190 – 1901MagnesiumUniRule annotation
    Metal bindingi191 – 1911MagnesiumUniRule annotation
    Active sitei280 – 2801Proton acceptorUniRule annotation
    Binding sitei281 – 2811SubstrateUniRule annotation
    Binding sitei313 – 3131SubstrateUniRule annotation
    Sitei321 – 3211Transition 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

    BioCyciSMAR399550:GHK2-1083-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:Smar_1051Imported
    OrganismiStaphylothermus marinus (strain ATCC 43588 / DSM 3639 / F1)Imported
    Taxonomic identifieri399550 [NCBI]
    Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiDesulfurococcalesDesulfurococcaceaeStaphylothermus
    ProteomesiUP000000254: Chromosome

    PTM / Processingi

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei188 – 1881N6-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

    Protein-protein interaction databases

    STRINGi399550.Smar_1051.

    Structurei

    3D structure databases

    ProteinModelPortaliA3DND9.
    SMRiA3DND9. Positions 11-442.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni366 – 3683Substrate bindingUniRule annotation
    Regioni388 – 3914Substrate bindingUniRule annotation

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG1850.
    HOGENOMiHOG000230831.
    KOiK01601.
    OMAiDDEICAN.

    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.

    A3DND9-1 [UniParc]FASTAAdd to Basket

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    MPHKFEPYHS YIDKNYVPDL ENDIIAVFRI KPAKGFTIED AAGGVAAESS    50
    TGTWTTLYPW YNTERVRKLS GKAYYFKDLG DGSWIVRIAY PVELFEEANM 100
    PGLLASIAGN VFGMKRVEGL RLEDIYLPKK FLQYFKGPSK GVEGVKKIFR 150
    VTDRPIVGTV PKPKVGYSPE EVEKLAYELL VGGMDYIKDD ENLTSPSFCR 200
    FSERAKHIMR AIDRAEKETG ERKVWFANIT SDIREMEKRL KLVADYDNPY 250
    VMVDVVVTGW STLTYIRDLA EEYGLAIHAH RAMHAAFTRN PYHGISMYVL 300
    AKLYRIIGVD QLHIGTAGVG KLEGGKIDVI RYARILREKH FKPDPDDVFH 350
    IEQEMYHIKP AMPVSSGGLH PGNLPGVIDA LGTELVLQIG GGVLGHPDGP 400
    RAGAMAVRQS LEAILKGIPL DEYAKTHREL ARALEKWGFA KPI 443
    Length:443
    Mass (Da):49,740
    Last modified:March 20, 2007 - v1
    Checksum:iC5D759EF6DED7861
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000575 Genomic DNA. Translation: ABN70149.1.
    RefSeqiWP_011839340.1. NC_009033.1.
    YP_001041057.1. NC_009033.1.

    Genome annotation databases

    EnsemblBacteriaiABN70149; ABN70149; Smar_1051.
    GeneIDi4906732.
    KEGGismr:Smar_1051.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000575 Genomic DNA. Translation: ABN70149.1 .
    RefSeqi WP_011839340.1. NC_009033.1.
    YP_001041057.1. NC_009033.1.

    3D structure databases

    ProteinModelPortali A3DND9.
    SMRi A3DND9. Positions 11-442.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 399550.Smar_1051.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABN70149 ; ABN70149 ; Smar_1051 .
    GeneIDi 4906732.
    KEGGi smr:Smar_1051.

    Phylogenomic databases

    eggNOGi COG1850.
    HOGENOMi HOG000230831.
    KOi K01601.
    OMAi DDEICAN.

    Enzyme and pathway databases

    BioCyci SMAR399550:GHK2-1083-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. "The complete genome sequence of Staphylothermus marinus reveals differences in sulfur metabolism among heterotrophic Crenarchaeota."
      Anderson I.J., Dharmarajan L., Rodriguez J., Hooper S., Porat I., Ulrich L.E., Elkins J.G., Mavromatis K., Sun H., Land M., Lapidus A., Lucas S., Barry K., Huber H., Zhulin I.B., Whitman W.B., Mukhopadhyay B., Woese C., Bristow J., Kyrpides N.
      BMC Genomics 10:145-145(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 43588 / DSM 3639 / F1Imported.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 43588 / DSM 3639 / F1Imported.

    Entry informationi

    Entry nameiA3DND9_STAMF
    AccessioniPrimary (citable) accession number: A3DND9
    Entry historyi
    Integrated into UniProtKB/TrEMBL: March 20, 2007
    Last sequence update: March 20, 2007
    Last modified: October 1, 2014
    This is version 52 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 proteome, Reference proteomeImported

    External Data

    Dasty 3