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Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

Organism
Pyrococcus sp. ST04
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

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

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei155Proton acceptorUniRule annotation1
Binding sitei157SubstrateUniRule annotation1
Metal bindingi181Magnesium; via carbamate groupUniRule annotation1
Metal bindingi183MagnesiumUniRule annotation1
Metal bindingi184MagnesiumUniRule annotation1
Active sitei273Proton acceptorUniRule annotation1
Binding sitei274SubstrateUniRule annotation1
Binding sitei306SubstrateUniRule annotation1
Sitei313Transition state stabilizerUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

LyaseUniRule annotation, OxidoreductaseUniRule annotation

Keywords - Biological processi

Carbon dioxide fixationUniRule annotation

Keywords - Ligandi

MagnesiumUniRule annotation, Metal-bindingUniRule annotation

Names & Taxonomyi

Protein namesi
Recommended name:
Ribulose bisphosphate carboxylaseUniRule annotation (EC:4.1.1.39UniRule annotation)
Short name:
RuBisCOUniRule annotation
Gene namesi
Name:rbcLUniRule annotation
ORF Names:Py04_1155Imported
OrganismiPyrococcus sp. ST04Imported
Taxonomic identifieri1183377 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000006467 Componenti: Chromosome

PTM / Processingi

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei181N6-carboxylysineUniRule annotation1

Interactioni

Subunit structurei

Homodimer or homodecamer. In contrast to form I RuBisCO, the form III RuBisCO is composed solely of large subunits.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliI3RER9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini8 – 124RuBisCO_large_NInterPro annotationAdd BLAST117
Domaini134 – 414RuBisCO_largeInterPro annotationAdd BLAST281

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni343 – 345Substrate bindingUniRule annotation3
Regioni365 – 368Substrate bindingUniRule annotation4

Sequence similaritiesi

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

Phylogenomic databases

KOiK01601.

Family and domain databases

CDDicd08213. RuBisCO_large_III. 1 hit.
Gene3Di3.20.20.110. 1 hit.
3.30.70.150. 1 hit.
HAMAPiMF_01133. RuBisCO_L_type3. 1 hit.
InterProiIPR033966. RuBisCO.
IPR017712. RuBisCO_III.
IPR000685. RuBisCO_lsu_C.
IPR017443. RuBisCO_lsu_fd_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.

I3RER9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKVEWYLDFV DLEYSPGRDE LIVEYYFEPN GVSPEEAAGR IASESSIGTW
60 70 80 90 100
TTLWKMPEMA KRSMAKVFYL EKKGDGYIAK IAYPLTLFEE GSLVQLFSAI
110 120 130 140 150
AGNIFGMKAI KNLRLLDFHP PYEYLRHFRG PQYGVNGIRE FMGVHDRPLT
160 170 180 190 200
ATVPKPKMGW SVEEYAEIAY ELWSGGIDLL KDDENFTSFP FNRFEERVRK
210 220 230 240 250
LYRVRDRVEA ETGETKEYLI NITGPVNVME KRAEMVANEG GQYVMIDIVV
260 270 280 290 300
AGWSALQYMR EVTEDLGLAI HAHRAMHAAF TRNPKHGITM LALAKAARMI
310 320 330 340 350
GVDQIHTGTA VGKMAGDYEE IKRINDFLLS RWEHIRPVFP VASGGLHPGL
360 370 380 390 400
MPELIRLFGK DLVIQAGGGV MGHPDGPKAG AKALRDAIEA AVDGIDLEEK
410 420
AKSSPELRKA LDKWGYLKPK
Length:420
Mass (Da):47,262
Last modified:September 5, 2012 - v1
Checksum:i85885F42443D3B99
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP003534 Genomic DNA. Translation: AFK22729.1.
RefSeqiWP_014734253.1. NC_017946.1.

Genome annotation databases

EnsemblBacteriaiAFK22729; AFK22729; Py04_1155.
GeneIDi13022403.
KEGGipys:Py04_1155.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP003534 Genomic DNA. Translation: AFK22729.1.
RefSeqiWP_014734253.1. NC_017946.1.

3D structure databases

ProteinModelPortaliI3RER9.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAFK22729; AFK22729; Py04_1155.
GeneIDi13022403.
KEGGipys:Py04_1155.

Phylogenomic databases

KOiK01601.

Family and domain databases

CDDicd08213. RuBisCO_large_III. 1 hit.
Gene3Di3.20.20.110. 1 hit.
3.30.70.150. 1 hit.
HAMAPiMF_01133. RuBisCO_L_type3. 1 hit.
InterProiIPR033966. RuBisCO.
IPR017712. RuBisCO_III.
IPR000685. RuBisCO_lsu_C.
IPR017443. RuBisCO_lsu_fd_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.
ProtoNetiSearch...

Entry informationi

Entry nameiI3RER9_9EURY
AccessioniPrimary (citable) accession number: I3RER9
Entry historyi
Integrated into UniProtKB/TrEMBL: September 5, 2012
Last sequence update: September 5, 2012
Last modified: November 30, 2016
This is version 27 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 proteomeImported

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.