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Protein

Ribulose bisphosphate carboxylase large chain

Gene

cbbL

Organism
Bradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

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.1 Publication

Catalytic activityi

2 3-phospho-D-glycerate + 2 H+ = D-ribulose 1,5-bisphosphate + CO2 + H2O.UniRule annotation1 Publication
3-phospho-D-glycerate + 2-phosphoglycolate = D-ribulose 1,5-bisphosphate + O2.UniRule annotation1 Publication

Cofactori

Mg2+UniRule annotationNote: Binds 1 Mg2+ ion per subunit.UniRule annotation

Kineticsi

The CO2/O2 specificity factor (tau) is 75.

  1. KM=55 µM for ribulose 1,5-bisphosphate1 Publication
  2. KM=66 µM for CO21 Publication
  1. Vmax=2.8 µmol/min/mg enzyme with CO2 as substrate1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei125Substrate; in homodimeric partnerUniRule annotation1
Binding sitei175SubstrateUniRule annotation1
Active sitei177Proton acceptorUniRule annotation1
Binding sitei179SubstrateUniRule annotation1
Metal bindingi203Magnesium; via carbamate groupUniRule annotation1
Metal bindingi205MagnesiumUniRule annotation1
Metal bindingi206MagnesiumUniRule annotation1
Active sitei295Proton acceptorUniRule annotation1
Binding sitei296SubstrateUniRule annotation1
Binding sitei328SubstrateUniRule annotation1
Sitei335Transition state stabilizerUniRule annotation1
Binding sitei380SubstrateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase, Monooxygenase, Oxidoreductase

Keywords - Biological processi

Calvin cycle, Carbon dioxide fixation

Keywords - Ligandi

Magnesium, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Ribulose bisphosphate carboxylase large chainUniRule annotation (EC:4.1.1.39UniRule annotation1 Publication)
Short name:
RuBisCO large subunitUniRule annotation
Gene namesi
Name:cbbLUniRule annotation
Ordered Locus Names:blr2585
OrganismiBradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
Taxonomic identifieri224911 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium
Proteomesi
  • UP000002526 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000626201 – 486Ribulose bisphosphate carboxylase large chainAdd BLAST486

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei203N6-carboxylysineUniRule annotation1

Interactioni

Subunit structurei

Heterohexadecamer of 8 large chains and 8 small chains.UniRule annotation1 Publication

Protein-protein interaction databases

STRINGi224911.blr2585.

Structurei

3D structure databases

ProteinModelPortaliQ9ZI34.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105DT1. Bacteria.
COG1850. LUCA.
HOGENOMiHOG000230831.
InParanoidiQ9ZI34.
KOiK01601.
OMAiFTQDWAS.
OrthoDBiPOG091H14UZ.

Family and domain databases

CDDicd08212. RuBisCO_large_I. 1 hit.
Gene3Di3.20.20.110. 1 hit.
3.30.70.150. 1 hit.
HAMAPiMF_01338. RuBisCO_L_type1. 1 hit.
InterProiIPR033966. RuBisCO.
IPR020878. RuBisCo_large_chain_AS.
IPR000685. RuBisCO_lsu_C.
IPR017443. RuBisCO_lsu_fd_N.
IPR020888. RuBisCO_lsuI.
[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.

Q9ZI34-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNAHTGTVRG KERYRSGVME YKRMGYWEPD YTPKDTDVIA LFRVTPQEGV
60 70 80 90 100
DPIEASAAVA GESSTATWTV VWTDRLTAAE KYRAKCHRVD PVPGTPGSYF
110 120 130 140 150
AYIAYDLDLF EPGSIANLSA SIIGNVFGFK PLKALRLEDM RFPVAYVKTF
160 170 180 190 200
QGPATGIVVE RERLDKFGRP LLGATVKPKL GLSGRNYGRV VYEALKGGLD
210 220 230 240 250
FTKDDENINS QPFMHWRDRF LYCIEAVNRA QAASGEVKGT YLNITAGTME
260 270 280 290 300
DMYERAEFAK ELGSCIVMID LVIGYTAIQS MAKWARRNDM ILHLHRAGHS
310 320 330 340 350
TYTRQKSHGV SFRVIAKWMR LAGVDHIHAG TVVGKLEGDP NTTRGYYDVC
360 370 380 390 400
REDFNPTKLE HGLFFDQSWA SLNKMMPVAS GGIHAGQMHQ LLDLLGEDVV
410 420 430 440 450
LQFGGGTIGH PMGIAAGAIA NRVALEAMIL ARNEGRDYVH EGPEILAKAA
460 470 480
QTCTPLKSAL EVWKDVTFNY QSTDTPDFVP TALETV
Length:486
Mass (Da):53,818
Last modified:May 1, 1999 - v1
Checksum:i4E949E13F57FDCE7
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti87H → Y in AAN61148 (PubMed:9882445).Curated1
Sequence conflicti87H → Y in BAC47850 (PubMed:9882445).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF041820 Genomic DNA. Translation: AAD05386.1.
AY150332 Genomic DNA. Translation: AAN61148.1.
BA000040 Genomic DNA. Translation: BAC47850.1.
RefSeqiNP_769225.1. NC_004463.1.

Genome annotation databases

EnsemblBacteriaiBAC47850; BAC47850; BAC47850.
GeneIDi1049510.
KEGGibja:blr2585.
PATRICi21188584. VBIBraJap65052_2551.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF041820 Genomic DNA. Translation: AAD05386.1.
AY150332 Genomic DNA. Translation: AAN61148.1.
BA000040 Genomic DNA. Translation: BAC47850.1.
RefSeqiNP_769225.1. NC_004463.1.

3D structure databases

ProteinModelPortaliQ9ZI34.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224911.blr2585.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAC47850; BAC47850; BAC47850.
GeneIDi1049510.
KEGGibja:blr2585.
PATRICi21188584. VBIBraJap65052_2551.

Phylogenomic databases

eggNOGiENOG4105DT1. Bacteria.
COG1850. LUCA.
HOGENOMiHOG000230831.
InParanoidiQ9ZI34.
KOiK01601.
OMAiFTQDWAS.
OrthoDBiPOG091H14UZ.

Family and domain databases

CDDicd08212. RuBisCO_large_I. 1 hit.
Gene3Di3.20.20.110. 1 hit.
3.30.70.150. 1 hit.
HAMAPiMF_01338. RuBisCO_L_type1. 1 hit.
InterProiIPR033966. RuBisCO.
IPR020878. RuBisCo_large_chain_AS.
IPR000685. RuBisCO_lsu_C.
IPR017443. RuBisCO_lsu_fd_N.
IPR020888. RuBisCO_lsuI.
[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]
ProtoNetiSearch...

Entry informationi

Entry nameiRBL_BRADU
AccessioniPrimary (citable) accession number: Q9ZI34
Secondary accession number(s): Q79UA8, Q8GKR7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 22, 2005
Last sequence update: May 1, 1999
Last modified: November 30, 2016
This is version 93 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.