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C5CPR2

- RBL_VARPS

UniProt

C5CPR2 - RBL_VARPS

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Protein
Ribulose bisphosphate carboxylase large chain
Gene
cbbL, Vapar_3032
Organism
Variovorax paradoxus (strain S110)
Status
Reviewed - Annotation score: 3 out of 5 - Protein inferred from homologyi

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 By similarity.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 By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei128 – 1281Substrate; in homodimeric partner By similarity
Binding sitei178 – 1781Substrate By similarity
Active sitei180 – 1801Proton acceptor By similarity
Binding sitei182 – 1821Substrate By similarity
Metal bindingi206 – 2061Magnesium; via carbamate group By similarity
Metal bindingi208 – 2081Magnesium By similarity
Metal bindingi209 – 2091Magnesium By similarity
Active sitei298 – 2981Proton acceptor By similarity
Binding sitei299 – 2991Substrate By similarity
Binding sitei331 – 3311Substrate By similarity
Sitei338 – 3381Transition state stabilizer By similarity
Binding sitei383 – 3831Substrate By similarity

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
Complete GO annotation...

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 chain (EC:4.1.1.39)
Short name:
RuBisCO large subunit
Gene namesi
Name:cbbL
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 chainUniRule annotation
PRO_1000214694Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei206 – 2061N6-carboxylysine By similarity

Interactioni

Subunit structurei

Heterohexadecamer of 8 large chains and 8 small chains By similarity.

Protein-protein interaction databases

STRINGi543728.Vapar_3032.

Structurei

3D structure databases

ProteinModelPortaliC5CPR2.

Family & Domainsi

Sequence similaritiesi

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

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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: May 14, 2014
This is version 30 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" By similarity.

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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