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Q2JIP3

- RBL_SYNJB

UniProt

Q2JIP3 - RBL_SYNJB

Protein

Ribulose bisphosphate carboxylase large chain

Gene

cbbL

Organism
Synechococcus sp. (strain JA-2-3B'a(2-13)) (Cyanobacteria bacterium Yellowstone B-Prime)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
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    • History
      Entry version 60 (01 Oct 2014)
      Sequence version 1 (07 Mar 2006)
      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 in the photorespiration process. 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 sitei122 – 1221Substrate; in homodimeric partnerUniRule annotation
    Binding sitei172 – 1721SubstrateUniRule annotation
    Active sitei174 – 1741Proton acceptorUniRule annotation
    Binding sitei176 – 1761SubstrateUniRule annotation
    Metal bindingi200 – 2001Magnesium; via carbamate groupUniRule annotation
    Metal bindingi202 – 2021MagnesiumUniRule annotation
    Metal bindingi203 – 2031MagnesiumUniRule annotation
    Active sitei293 – 2931Proton acceptorUniRule annotation
    Binding sitei294 – 2941SubstrateUniRule annotation
    Binding sitei326 – 3261SubstrateUniRule annotation
    Sitei333 – 3331Transition state stabilizerUniRule annotation
    Binding sitei378 – 3781SubstrateUniRule 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. photorespiration Source: UniProtKB-KW
    2. reductive pentose-phosphate cycle Source: UniProtKB-KW

    Keywords - Molecular functioni

    Lyase, Monooxygenase, Oxidoreductase

    Keywords - Biological processi

    Calvin cycle, Carbon dioxide fixation, Photorespiration, Photosynthesis

    Keywords - Ligandi

    Magnesium, Metal-binding

    Enzyme and pathway databases

    BioCyciSSP321332:GH1B-2579-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
    Synonyms:rbcLUniRule annotation
    Ordered Locus Names:CYB_2579
    OrganismiSynechococcus sp. (strain JA-2-3B'a(2-13)) (Cyanobacteria bacterium Yellowstone B-Prime)
    Taxonomic identifieri321332 [NCBI]
    Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechococcus
    ProteomesiUP000001938: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 474474Ribulose bisphosphate carboxylase large chainPRO_0000251462Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei200 – 2001N6-carboxylysineUniRule annotation
    Disulfide bondi246 – 246Interchain; in linked formUniRule annotation

    Post-translational modificationi

    The disulfide bond which can form in the large chain dimeric partners within the hexadecamer appears to be associated with oxidative stress and protein turnover.UniRule annotation

    Keywords - PTMi

    Disulfide bond

    Proteomic databases

    PRIDEiQ2JIP3.

    Interactioni

    Subunit structurei

    Heterohexadecamer of 8 large chains and 8 small chains; disulfide-linked. The disulfide link is formed within the large subunit homodimers.UniRule annotation

    Protein-protein interaction databases

    STRINGi321332.CYB_2579.

    Structurei

    3D structure databases

    ProteinModelPortaliQ2JIP3.
    SMRiQ2JIP3. Positions 8-474.
    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.

    Q2JIP3-1 [UniParc]FASTAAdd to Basket

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    MAYSATQSKS GYQAGVKDYR LTYYTPDYTP KDTDVLACFR VTPQPGVPPE    50
    EAGAAVAAES STGTWTTVWT DLLTDLDRYK GRCYDIEPVP GEDNQYFCFV 100
    AYPLDLFEEG SVTNMLTSIV GNVFGFKALK ALRLEDVRIP VAYLKTFQGP 150
    PHGIQVERDK LNKYGRPLLG CTIKPKLGLS AKNYGRAVYE ALRGGLDFTK 200
    DDENINSQPF QRWRDRYLFV MEAVHKAQAE TGEIKGHYLN VTAPTCEEMF 250
    KRAEFAKELG APIIMHDYLT AGFTANTSLA KWCRDNGILL HIHRAMHAVI 300
    DRQKNHGIHF RVLAKCLRMS GGDHLHSGTV VGKLEGDRAI TMGFVDLMRE 350
    NYVEADRSRG IFFTQDWASM PGVMPVASGG IHVWHMPALV EIFGDDSVLQ 400
    FGGGTLGHPW GNAPGATANR VALEACIQAR NEGRDLAREG NDIIREAAKW 450
    SPELAAACEL WKEIKFEFKA VDTL 474
    Length:474
    Mass (Da):52,727
    Last modified:March 7, 2006 - v1
    Checksum:i159EB8C81B3EA67A
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000240 Genomic DNA. Translation: ABD03511.1.
    RefSeqiWP_011434138.1. NC_007776.1.
    YP_478774.1. NC_007776.1.

    Genome annotation databases

    EnsemblBacteriaiABD03511; ABD03511; CYB_2579.
    GeneIDi3901300.
    KEGGicyb:CYB_2579.
    PATRICi23807514. VBISynSp29577_2582.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000240 Genomic DNA. Translation: ABD03511.1 .
    RefSeqi WP_011434138.1. NC_007776.1.
    YP_478774.1. NC_007776.1.

    3D structure databases

    ProteinModelPortali Q2JIP3.
    SMRi Q2JIP3. Positions 8-474.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 321332.CYB_2579.

    Proteomic databases

    PRIDEi Q2JIP3.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABD03511 ; ABD03511 ; CYB_2579 .
    GeneIDi 3901300.
    KEGGi cyb:CYB_2579.
    PATRICi 23807514. VBISynSp29577_2582.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci SSP321332:GH1B-2579-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. "Population level functional diversity in a microbial community revealed by comparative genomic and metagenomic analyses."
      Bhaya D., Grossman A.R., Steunou A.-S., Khuri N., Cohan F.M., Hamamura N., Melendrez M.C., Bateson M.M., Ward D.M., Heidelberg J.F.
      ISME J. 1:703-713(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: JA-2-3B'a(2-13).

    Entry informationi

    Entry nameiRBL_SYNJB
    AccessioniPrimary (citable) accession number: Q2JIP3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 3, 2006
    Last sequence update: March 7, 2006
    Last modified: October 1, 2014
    This is version 60 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