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D3SZI3

- D3SZI3_NATMM

UniProt

D3SZI3 - D3SZI3_NATMM

Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

Organism
Natrialba magadii (strain ATCC 43099 / DSM 3394 / NCIMB 2190 / MS3) (Natronobacterium magadii)
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 35 (01 Oct 2014)
      Sequence version 1 (20 Apr 2010)
      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 sitei152 – 1521Proton acceptorUniRule annotation
    Binding sitei154 – 1541SubstrateUniRule annotation
    Metal bindingi178 – 1781Magnesium; via carbamate groupUniRule annotation
    Metal bindingi180 – 1801MagnesiumUniRule annotation
    Metal bindingi181 – 1811MagnesiumUniRule annotation
    Active sitei270 – 2701Proton acceptorUniRule annotation
    Binding sitei271 – 2711SubstrateUniRule annotation
    Binding sitei303 – 3031SubstrateUniRule annotation
    Sitei311 – 3111Transition state stabilizerUniRule annotation

    GO - Molecular functioni

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

    GO - Biological processi

    1. AMP catabolic process Source: UniProtKB-HAMAP
    2. carbon fixation Source: InterPro

    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

    BioCyciNMAG547559:GJAP-746-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 annotationImported
    Ordered Locus Names:Nmag_0732Imported
    ORF Names:C500_16200Imported
    OrganismiNatrialba magadii (strain ATCC 43099 / DSM 3394 / NCIMB 2190 / MS3) (Natronobacterium magadii)Imported
    Taxonomic identifieri547559 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaHalobacteriaHalobacterialesHalobacteriaceaeNatrialba
    ProteomesiUP000001879: Chromosome

    PTM / Processingi

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei178 – 1781N6-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

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni339 – 3413Substrate bindingUniRule annotation
    Regioni361 – 3644Substrate bindingUniRule annotation

    Sequence similaritiesi

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

    Phylogenomic databases

    HOGENOMiHOG000230831.
    KOiK01601.
    OMAiFTQDWAS.

    Family and domain databases

    Gene3Di3.20.20.110. 1 hit.
    3.30.70.150. 1 hit.
    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.

    D3SZI3-1 [UniParc]FASTAAdd to Basket

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    MTGIEYDDFL DREYNPDSTD LVCTFRIDPA EDMSMEAAAS RVASESSNGT    50
    WAALHVDEDE LTHLGAVAYG IDGDEITVAY PAELFEAGSM PQILSCIAGN 100
    IMGMKAVDAI RLEDCKWPES ITSGFPGPQF GTSVAREKLD AGDRPILATV 150
    PKPKVGLSTD AHVRVGEEAW RGGVDLLKDD ENLTDQDFNP FEDRLAESLA 200
    ARDRVEEDVG ERKDYLVNVT AETNEMLERV DLVDEHGGGF VMVDIITCGW 250
    SAVQSVRDRC EKHGLAIHAH RAMHAAFDRM DHHGVSMRVI AQISRLCGVD 300
    HIHTGTAGLG KLANEDTPGI NDWLHGNCHG LNPVLPVASG GLHPGVVDQL 350
    IDALGTDICV QAGGGIHGHP DGTHAGAKAL RQATDASLDG VPLEEYAQDP 400
    AHAELATALK KWGAETPR 418
    Length:418
    Mass (Da):44,905
    Last modified:April 20, 2010 - v1
    Checksum:iC582979A06488EA7
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001932 Genomic DNA. Translation: ADD04317.1.
    AOHS01000051 Genomic DNA. Translation: ELY26719.1.
    RefSeqiYP_003478879.1. NC_013922.1.

    Genome annotation databases

    EnsemblBacteriaiADD04317; ADD04317; Nmag_0732.
    ELY26719; ELY26719; C500_16200.
    GeneIDi8823560.
    KEGGinmg:Nmag_0732.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001932 Genomic DNA. Translation: ADD04317.1 .
    AOHS01000051 Genomic DNA. Translation: ELY26719.1 .
    RefSeqi YP_003478879.1. NC_013922.1.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ADD04317 ; ADD04317 ; Nmag_0732 .
    ELY26719 ; ELY26719 ; C500_16200 .
    GeneIDi 8823560.
    KEGGi nmg:Nmag_0732.

    Phylogenomic databases

    HOGENOMi HOG000230831.
    KOi K01601.
    OMAi FTQDWAS.

    Enzyme and pathway databases

    BioCyci NMAG547559:GJAP-746-MONOMER.

    Family and domain databases

    Gene3Di 3.20.20.110. 1 hit.
    3.30.70.150. 1 hit.
    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 sequence of chromosome of Natrialba magadii ATCC 43099."
      US DOE Joint Genome Institute
      Lucas S., Copeland A., Lapidus A., Cheng J.-F., Bruce D., Goodwin L., Pitluck S., Davenport K., Saunders E., Detter J.C., Han C., Tapia R., Land M., Hauser L., Kyrpides N., Mikhailova N., De Castro R.E., Maupin-Furlow J.A., Woyke T.
      Submitted (FEB-2010) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 43099 / DSM 3394 / NCIMB 2190 / MS3Imported.
    2. "A comparative genomics perspective on the genetic content of the alkaliphilic haloarchaeon Natrialba magadii ATCC 43099T."
      Siddaramappa S., Challacombe J.F., Decastro R.E., Pfeiffer F., Sastre D.E., Gimenez M.I., Paggi R.A., Detter J.C., Davenport K.W., Goodwin L.A., Kyrpides N., Tapia R., Pitluck S., Lucas S., Woyke T., Maupin-Furlow J.A.
      BMC Genomics 13:165-165(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: ATCC 43099Imported.
    3. Becker E.A., Seitzer P., Tritt A., Larsen D., Yao A., Wu D., Darling A., Eisen J.A., Facciotti M.T.
      Submitted (NOV-2012) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: MS-3Imported.

    Entry informationi

    Entry nameiD3SZI3_NATMM
    AccessioniPrimary (citable) accession number: D3SZI3
    Entry historyi
    Integrated into UniProtKB/TrEMBL: April 20, 2010
    Last sequence update: April 20, 2010
    Last modified: October 1, 2014
    This is version 35 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