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B8D5T5

- B8D5T5_DESK1

UniProt

B8D5T5 - B8D5T5_DESK1

Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

Organism
Desulfurococcus kamchatkensis (strain 1221n / DSM 18924)
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 37 (01 Oct 2014)
      Sequence version 1 (03 Mar 2009)
      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 sitei167 – 1671Proton acceptorUniRule annotation
    Binding sitei169 – 1691SubstrateUniRule annotation
    Metal bindingi193 – 1931Magnesium; via carbamate groupUniRule annotation
    Metal bindingi195 – 1951MagnesiumUniRule annotation
    Metal bindingi196 – 1961MagnesiumUniRule annotation
    Active sitei285 – 2851Proton acceptorUniRule annotation
    Binding sitei286 – 2861SubstrateUniRule annotation
    Binding sitei318 – 3181SubstrateUniRule annotation
    Sitei326 – 3261Transition 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

    BioCyciDKAM490899:GHYH-1171-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:DKAM_1140Imported
    OrganismiDesulfurococcus kamchatkensis (strain 1221n / DSM 18924)Imported
    Taxonomic identifieri490899 [NCBI]
    Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiDesulfurococcalesDesulfurococcaceaeDesulfurococcus
    ProteomesiUP000006903: Chromosome

    PTM / Processingi

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei193 – 1931N6-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

    STRINGi490899.DKAM_1140.

    Structurei

    3D structure databases

    ProteinModelPortaliB8D5T5.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni371 – 3733Substrate bindingUniRule annotation
    Regioni393 – 3964Substrate bindingUniRule annotation

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG1850.
    HOGENOMiHOG000230831.
    KOiK01601.
    OMAiFTQDWAS.

    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.

    B8D5T5-1 [UniParc]FASTAAdd to Basket

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    MKLMSGKFEF ETYHEYIDKN YTPDPSNDVI AVYRVKPAQG FTIEDAAGGV    50
    AAESSTGTWT SLYNWYDVGR VRRLSGKAYY FKDLDDGSWI VKIAYPVELF 100
    EEGNIPGLLA SIAGNIFGMK RVEGLRLEDI YLPKKFLESF KGPSKGLNGV 150
    REIFGVKDRP IVGTVPKPKE GYSPEEVEKL ALELLSGGLD YIKDDENLTS 200
    PSFCRFEARA KAIMKVIDKV EKETGERKVW FANITSDIRE MEKRLRLVAD 250
    YGNPYIMVDV VITGWSALTY IRDLAEEYGL AIHGHRAMHA AFTRNPYHGI 300
    SMYVLAKLYR IIGIDQLHIG TAGAGKLEGG KLDVIRYAKI LREIHFKPDP 350
    DDMYHLEQPM HHIKPAMPVS SGGLHPGNLP PVIEALGTNL VLQIGGGVIG 400
    HPDGPRAGAL AVRQALEAIM NNIPLDEYAK THRELARALE KWGFAKPI 448
    Length:448
    Mass (Da):49,948
    Last modified:March 3, 2009 - v1
    Checksum:i341A7EDE5549F78B
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001140 Genomic DNA. Translation: ACL11466.1.
    RefSeqiWP_012608807.1. NC_011766.1.
    YP_002428833.1. NC_011766.1.

    Genome annotation databases

    EnsemblBacteriaiACL11466; ACL11466; DKAM_1140.
    GeneIDi7171232.
    KEGGidka:DKAM_1140.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001140 Genomic DNA. Translation: ACL11466.1 .
    RefSeqi WP_012608807.1. NC_011766.1.
    YP_002428833.1. NC_011766.1.

    3D structure databases

    ProteinModelPortali B8D5T5.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 490899.DKAM_1140.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACL11466 ; ACL11466 ; DKAM_1140 .
    GeneIDi 7171232.
    KEGGi dka:DKAM_1140.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci DKAM490899:GHYH-1171-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 anaerobic, protein-degrading hyperthermophilic crenarchaeon Desulfurococcus kamchatkensis."
      Ravin N.V., Mardanov A.V., Beletsky A.V., Kublanov I.V., Kolganova T.V., Lebedinsky A.V., Chernyh N.A., Bonch-Osmolovskaya E.A., Skryabin K.G.
      J. Bacteriol. 191:2371-2379(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: 1221n / DSM 18924Imported.

    Entry informationi

    Entry nameiB8D5T5_DESK1
    AccessioniPrimary (citable) accession number: B8D5T5
    Entry historyi
    Integrated into UniProtKB/TrEMBL: March 3, 2009
    Last sequence update: March 3, 2009
    Last modified: October 1, 2014
    This is version 37 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