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C5CPR2

- RBL_VARPS

UniProt

C5CPR2 - RBL_VARPS

Protein

Ribulose bisphosphate carboxylase large chain

Gene

cbbL

Organism
Variovorax paradoxus (strain S110)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 31 (01 Oct 2014)
      Sequence version 1 (28 Jul 2009)
      Previous versions | rss
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    Functioni

    RuBisCO catalyzes two reactions: the carboxylation of D-ribulose 1,5-bisphosphate, the primary event in carbon dioxide fixation, as well as the oxidative fragmentation of the pentose substrate. Both reactions occur simultaneously and in competition at the same active site.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
    Binding sitei128 – 1281Substrate; in homodimeric partnerUniRule annotation
    Binding sitei178 – 1781SubstrateUniRule annotation
    Active sitei180 – 1801Proton acceptorUniRule annotation
    Binding sitei182 – 1821SubstrateUniRule annotation
    Metal bindingi206 – 2061Magnesium; via carbamate groupUniRule annotation
    Metal bindingi208 – 2081MagnesiumUniRule annotation
    Metal bindingi209 – 2091MagnesiumUniRule annotation
    Active sitei298 – 2981Proton acceptorUniRule annotation
    Binding sitei299 – 2991SubstrateUniRule annotation
    Binding sitei331 – 3311SubstrateUniRule annotation
    Sitei338 – 3381Transition state stabilizerUniRule annotation
    Binding sitei383 – 3831SubstrateUniRule annotation

    GO - Molecular functioni

    1. magnesium ion binding Source: UniProtKB-HAMAP
    2. monooxygenase activity Source: UniProtKB-KW
    3. ribulose-bisphosphate carboxylase activity Source: UniProtKB-HAMAP

    GO - Biological processi

    1. reductive pentose-phosphate cycle Source: UniProtKB-KW

    Keywords - Molecular functioni

    Lyase, Monooxygenase, Oxidoreductase

    Keywords - Biological processi

    Calvin cycle, Carbon dioxide fixation

    Keywords - Ligandi

    Magnesium, Metal-binding

    Enzyme and pathway databases

    BioCyciVPAR543728:GHLL-3061-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribulose bisphosphate carboxylase large chainUniRule annotation (EC:4.1.1.39UniRule annotation)
    Short name:
    RuBisCO large subunitUniRule annotation
    Gene namesi
    Name:cbbLUniRule annotation
    Ordered Locus Names:Vapar_3032
    OrganismiVariovorax paradoxus (strain S110)
    Taxonomic identifieri543728 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeVariovorax
    ProteomesiUP000000453: Chromosome 1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 488488Ribulose bisphosphate carboxylase large chainPRO_1000214694Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei206 – 2061N6-carboxylysineUniRule annotation

    Interactioni

    Subunit structurei

    Heterohexadecamer of 8 large chains and 8 small chains.UniRule annotation

    Protein-protein interaction databases

    STRINGi543728.Vapar_3032.

    Structurei

    3D structure databases

    ProteinModelPortaliC5CPR2.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG1850.
    HOGENOMiHOG000230831.
    KOiK01601.
    OMAiFTQDWAS.
    OrthoDBiEOG6ZKXMS.

    Family and domain databases

    Gene3Di3.20.20.110. 1 hit.
    3.30.70.150. 1 hit.
    HAMAPiMF_01338. RuBisCO_L_type1.
    InterProiIPR020878. RuBisCo_large_chain_AS.
    IPR020888. RuBisCO_lsu.
    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.
    PROSITEiPS00157. RUBISCO_LARGE. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    C5CPR2-1 [UniParc]FASTAAdd to Basket

    « Hide

    MGNMNEAIQI TDAKKRYSAG VLKYAQMGYW DGDYVPKDTD ILALFRITPQ    50
    EGVDAIEAAA AVAGESSTAT WTVVWTDRLT ACDMYRAKAY KVEPVPNNPG 100
    QYFCYVAYDL SLFEEGSITN VTASIIGNVF SFKPLKAARL EDMKFPVAYV 150
    KTFPGPPTGI VVERERLDKF GRPLLGATTK PKLGLSGRNY GRVVYEGLRG 200
    GLDFMKDDEN INSQPFMHWR DRFLFVMDAV NKASAATGEV KGSYLNVTAG 250
    TMEEMYRRAQ FAKELGSVIV MVDLVIGYTA IQSMSNWCRQ NDMILHLHRA 300
    GHGTYTRQKN HGVSFRVIAK WMRLAGVDHI HAGTAVGKLE GDPMTVQGYY 350
    NVCRDTHTKV DLPRGIYFDQ DWGALRKVMP VASGGIHAGQ MHQLLDLFGD 400
    DVVLQFGGGT IGHPQGIQAG ATANRVALEA MVLARNEGRD IANEGPQILR 450
    DAAKWCTPLA AALDTWGEIS FNYASTDTSD YVPTPSVA 488
    Length:488
    Mass (Da):53,698
    Last modified:July 28, 2009 - v1
    Checksum:i7D8A9FC3516E2A80
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001635 Genomic DNA. Translation: ACS19651.1.
    RefSeqiYP_002944917.1. NC_012791.1.

    Genome annotation databases

    EnsemblBacteriaiACS19651; ACS19651; Vapar_3032.
    GeneIDi7973752.
    KEGGivap:Vapar_3032.
    PATRICi24006473. VBIVarPar36677_3025.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001635 Genomic DNA. Translation: ACS19651.1 .
    RefSeqi YP_002944917.1. NC_012791.1.

    3D structure databases

    ProteinModelPortali C5CPR2.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 543728.Vapar_3032.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACS19651 ; ACS19651 ; Vapar_3032 .
    GeneIDi 7973752.
    KEGGi vap:Vapar_3032.
    PATRICi 24006473. VBIVarPar36677_3025.

    Phylogenomic databases

    eggNOGi COG1850.
    HOGENOMi HOG000230831.
    KOi K01601.
    OMAi FTQDWAS.
    OrthoDBi EOG6ZKXMS.

    Enzyme and pathway databases

    BioCyci VPAR543728:GHLL-3061-MONOMER.

    Family and domain databases

    Gene3Di 3.20.20.110. 1 hit.
    3.30.70.150. 1 hit.
    HAMAPi MF_01338. RuBisCO_L_type1.
    InterProi IPR020878. RuBisCo_large_chain_AS.
    IPR020888. RuBisCO_lsu.
    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.
    PROSITEi PS00157. RUBISCO_LARGE. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Complete genome sequence of the metabolically versatile plant growth-promoting endophyte, Variovorax paradoxus S110."
      Han J.I., Choi H.K., Lee S.W., Orwin P.M., Kim J., Laroe S.L., Kim T.G., O'Neil J., Leadbetter J.R., Lee S.Y., Hur C.G., Spain J.C., Ovchinnikova G., Goodwin L., Han C.
      J. Bacteriol. 193:1183-1190(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: S110.

    Entry informationi

    Entry nameiRBL_VARPS
    AccessioniPrimary (citable) accession number: C5CPR2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 22, 2009
    Last sequence update: July 28, 2009
    Last modified: October 1, 2014
    This is version 31 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    The basic functional RuBisCO is composed of a large chain homodimer in a "head-to-tail" conformation. In form I RuBisCO this homodimer is arranged in a barrel-like tetramer with the small subunits forming a tetrameric "cap" on each end of the "barrel".UniRule annotation

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3