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Protein

Ribulose bisphosphate carboxylase

Gene

cbbM

Organism
Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)
Status
Reviewed-Annotation score: Annotation score: 3 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.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

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei112Substrate; in homodimeric partnerUniRule annotation1
Active sitei167Proton acceptorUniRule annotation1
Binding sitei169SubstrateUniRule annotation1
Metal bindingi192Magnesium; via carbamate groupUniRule annotation1
Metal bindingi194MagnesiumUniRule annotation1
Metal bindingi195MagnesiumUniRule annotation1
Active sitei288Proton acceptorUniRule annotation1
Binding sitei289SubstrateUniRule annotation1
Binding sitei322SubstrateUniRule annotation1
Sitei330Transition state stabilizerUniRule annotation1
Binding sitei369SubstrateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase, Monooxygenase, Oxidoreductase

Keywords - Biological processi

Calvin cycle, Carbon dioxide fixation, Photosynthesis

Keywords - Ligandi

Magnesium, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Ribulose bisphosphate carboxylaseUniRule annotation (EC:4.1.1.39UniRule annotation)
Short name:
RuBisCOUniRule annotation
Gene namesi
Name:cbbMUniRule annotation
Ordered Locus Names:RPA4641
OrganismiRhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)
Taxonomic identifieri258594 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeRhodopseudomonas
Proteomesi
  • UP000001426 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000626651 – 461Ribulose bisphosphate carboxylaseAdd BLAST461

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei192N6-carboxylysineUniRule annotation1

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi258594.RPA4641.

Structurei

Secondary structure

1461
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi4 – 7Combined sources4
Helixi14 – 20Combined sources7
Beta strandi23 – 32Combined sources10
Helixi39 – 49Combined sources11
Turni50 – 52Combined sources3
Helixi63 – 67Combined sources5
Beta strandi71 – 76Combined sources6
Turni77 – 80Combined sources4
Beta strandi81 – 87Combined sources7
Helixi88 – 90Combined sources3
Turni95 – 97Combined sources3
Helixi102 – 109Combined sources8
Helixi112 – 115Combined sources4
Beta strandi119 – 128Combined sources10
Helixi131 – 134Combined sources4
Helixi144 – 151Combined sources8
Beta strandi155 – 157Combined sources3
Beta strandi161 – 165Combined sources5
Beta strandi167 – 170Combined sources4
Helixi174 – 185Combined sources12
Beta strandi189 – 192Combined sources4
Beta strandi198 – 200Combined sources3
Helixi205 – 223Combined sources19
Beta strandi228 – 232Combined sources5
Helixi238 – 252Combined sources15
Helixi253 – 258Combined sources6
Beta strandi259 – 264Combined sources6
Helixi265 – 268Combined sources4
Helixi270 – 279Combined sources10
Beta strandi283 – 288Combined sources6
Turni290 – 292Combined sources3
Helixi293 – 296Combined sources4
Beta strandi302 – 304Combined sources3
Helixi306 – 316Combined sources11
Beta strandi319 – 322Combined sources4
Beta strandi328 – 332Combined sources5
Helixi335 – 337Combined sources3
Helixi338 – 345Combined sources8
Beta strandi346 – 350Combined sources5
Beta strandi355 – 357Combined sources3
Beta strandi365 – 371Combined sources7
Helixi374 – 376Combined sources3
Helixi377 – 384Combined sources8
Beta strandi389 – 392Combined sources4
Helixi394 – 398Combined sources5
Helixi404 – 420Combined sources17
Helixi424 – 427Combined sources4
Helixi428 – 430Combined sources3
Helixi432 – 440Combined sources9
Helixi442 – 448Combined sources7
Helixi452 – 455Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4LF1X-ray2.38A/B/C/D/E/F1-461[»]
4LF2X-ray2.38A/B/C/D/E/F1-461[»]
ProteinModelPortaliQ6N0W9.
SMRiQ6N0W9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105DT1. Bacteria.
COG1850. LUCA.
HOGENOMiHOG000230831.
KOiK01601.
OMAiTARRQYP.
OrthoDBiPOG091H14UZ.
PhylomeDBiQ6N0W9.

Family and domain databases

CDDicd08211. RuBisCO_large_II. 1 hit.
Gene3Di3.20.20.110. 1 hit.
3.30.70.150. 1 hit.
HAMAPiMF_01339. RuBisCO_L_type2. 1 hit.
InterProiIPR033966. RuBisCO.
IPR020878. RuBisCo_large_chain_AS.
IPR000685. RuBisCO_lsu_C.
IPR017443. RuBisCO_lsu_fd_N.
IPR020871. RuBisCO_lsuII.
[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.

Q6N0W9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDQSNRYANL NLKESELIAG GRHVLCAYIM KPKAGFGNFI QTAAHFAAES
60 70 80 90 100
STGTNVEVST TDDFTRGVDA LVYEVDEANS LMKIAYPIEL FDRNVIDGRA
110 120 130 140 150
MIASFLTLTI GNNQGMGDVE YAKMYDFYVP PAYLKLFDGP STTIKDLWRV
160 170 180 190 200
LGRPVINGGF IVGTIIKPKL GLRPQPFANA CYDFWLGGDF IKNDEPQGNQ
210 220 230 240 250
VFAPFKDTVR AVADAMRRAQ DKTGEAKLFS FNITADDHYE MLARGEFILE
260 270 280 290 300
TFADNADHIA FLVDGYVAGP AAVTTARRAF PKQYLHYHRA GHGAVTSPQS
310 320 330 340 350
KRGYTAFVLS KMARLQGASG IHTGTMGFGK MEGEAADRAI AYMITEDAAD
360 370 380 390 400
GPYFHQEWLG MNPTTPIISG GMNALRMPGF FDNLGHSNLI MTAGGGAFGH
410 420 430 440 450
VDGGAAGAKS LRQAEQCWKQ GADPVEFAKD HREFARAFES FPQDADKLYP
460
NWRAKLKPQA A
Length:461
Mass (Da):50,485
Last modified:July 5, 2004 - v1
Checksum:i907EFB041943AABC
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti75V → I in AAN52766 (PubMed:12900023).Curated1
Sequence conflicti79 – 80NS → KG in AAN52766 (PubMed:12900023).Curated2
Sequence conflicti145K → R in AAN52766 (PubMed:12900023).Curated1
Sequence conflicti156I → V in AAN52766 (PubMed:12900023).Curated1
Sequence conflicti348A → S in AAN52766 (PubMed:12900023).Curated1
Sequence conflicti361M → L in AAN52766 (PubMed:12900023).Curated1
Sequence conflicti442 – 443PQ → AH in AAK39106 (PubMed:15259271).Curated2

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY155466 Genomic DNA. Translation: AAN52766.1.
AF355197 Genomic DNA. Translation: AAK39106.1.
BX572607 Genomic DNA. Translation: CAE30081.1.
RefSeqiWP_011160173.1. NC_005296.1.

Genome annotation databases

EnsemblBacteriaiCAE30081; CAE30081; RPA4641.
KEGGirpa:RPA4641.
PATRICi23293933. VBIRhoPal84835_4873.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY155466 Genomic DNA. Translation: AAN52766.1.
AF355197 Genomic DNA. Translation: AAK39106.1.
BX572607 Genomic DNA. Translation: CAE30081.1.
RefSeqiWP_011160173.1. NC_005296.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4LF1X-ray2.38A/B/C/D/E/F1-461[»]
4LF2X-ray2.38A/B/C/D/E/F1-461[»]
ProteinModelPortaliQ6N0W9.
SMRiQ6N0W9.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi258594.RPA4641.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAE30081; CAE30081; RPA4641.
KEGGirpa:RPA4641.
PATRICi23293933. VBIRhoPal84835_4873.

Phylogenomic databases

eggNOGiENOG4105DT1. Bacteria.
COG1850. LUCA.
HOGENOMiHOG000230831.
KOiK01601.
OMAiTARRQYP.
OrthoDBiPOG091H14UZ.
PhylomeDBiQ6N0W9.

Family and domain databases

CDDicd08211. RuBisCO_large_II. 1 hit.
Gene3Di3.20.20.110. 1 hit.
3.30.70.150. 1 hit.
HAMAPiMF_01339. RuBisCO_L_type2. 1 hit.
InterProiIPR033966. RuBisCO.
IPR020878. RuBisCo_large_chain_AS.
IPR000685. RuBisCO_lsu_C.
IPR017443. RuBisCO_lsu_fd_N.
IPR020871. RuBisCO_lsuII.
[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 nameiRBL2_RHOPA
AccessioniPrimary (citable) accession number: Q6N0W9
Secondary accession number(s): Q8GJP8, Q93TJ8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 22, 2005
Last sequence update: July 5, 2004
Last modified: November 30, 2016
This is version 84 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 contrast to form I RuBisCO, the form II RuBisCO are composed solely of large subunits.UniRule annotation

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. 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.