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Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

Organism
Methanothermococcus okinawensis (strain DSM 14208 / JCM 11175 / IH1)
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 sitei153Proton acceptorUniRule annotation1
Binding sitei155SubstrateUniRule annotation1
Metal bindingi179Magnesium; via carbamate groupUniRule annotation1
Metal bindingi181MagnesiumUniRule annotation1
Metal bindingi182MagnesiumUniRule annotation1
Active sitei269Proton acceptorUniRule annotation1
Binding sitei270SubstrateUniRule annotation1
Binding sitei302SubstrateUniRule annotation1
Sitei309Transition state stabilizerUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

LyaseUniRule annotationImported, 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
Ordered Locus Names:Metok_0719Imported
OrganismiMethanothermococcus okinawensis (strain DSM 14208 / JCM 11175 / IH1)Imported
Taxonomic identifieri647113 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanococciMethanococcalesMethanococcaceaeMethanothermococcus
Proteomesi
  • UP000009296 Componenti: Chromosome

PTM / Processingi

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei179N6-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

Protein-protein interaction databases

STRINGi647113.Metok_0719.

Structurei

3D structure databases

ProteinModelPortaliF8AM17.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini2 – 122RuBisCO_large_NInterPro annotationAdd BLAST121
Domaini132 – 424RuBisCO_largeInterPro annotationAdd BLAST293

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni353 – 355Substrate bindingUniRule annotation3
Regioni375 – 378Substrate bindingUniRule annotation4

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiarCOG04443. Archaea.
COG1850. LUCA.
KOiK01601.
OMAiFTQDWAS.

Family and domain databases

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.

F8AM17-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDYLELGYEP KDNELLSCMV VKAENLKKAA NDIAGESSIG TWTELKTMKS
60 70 80 90 100
EIYKKLKPRV YEINEMGKEG DTNIGLIKIA YPLDTFEPNN MPGTLAGIAG
110 120 130 140 150
NIFGMKSLNG LRILDFRFPK EFIKCYSGPK YGIKGIRKLL NVMERPLVGT
160 170 180 190 200
IVKPKVGLNS EEHAKVAYNS WIGGCDIVKD DENLVSQDFN KFEGRLHKVL
210 220 230 240 250
ECRDKAESET GEKKIYMPNI TAPYREMVRR AELVEDAGCE YAMIDVVVLG
260 270 280 290 300
FSAVQQIREE GFNFAIHAHR AMHAAITRSR EWGISMLALA KIYRLLGVDQ
310 320 330 340 350
LHIGTVVGKM EGGKDEVCSI RDEIVLEDVK EDNKNKFFNQ KWHGLNNTFP
360 370 380 390 400
VSSGGVYPKL VPEIVNIFGK DVIIQAGGGI HGHPEGTVAG ARAMRASVEA
410 420
SIEGIPLSEK AEEVSELKKA LEYWK
Length:425
Mass (Da):47,362
Last modified:September 21, 2011 - v1
Checksum:iE2A1A4B6BF3F5829
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002792 Genomic DNA. Translation: AEH06696.1.
RefSeqiWP_013866882.1. NC_015636.1.

Genome annotation databases

EnsemblBacteriaiAEH06696; AEH06696; Metok_0719.
GeneIDi10772860.
KEGGimok:Metok_0719.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002792 Genomic DNA. Translation: AEH06696.1.
RefSeqiWP_013866882.1. NC_015636.1.

3D structure databases

ProteinModelPortaliF8AM17.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi647113.Metok_0719.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAEH06696; AEH06696; Metok_0719.
GeneIDi10772860.
KEGGimok:Metok_0719.

Phylogenomic databases

eggNOGiarCOG04443. Archaea.
COG1850. LUCA.
KOiK01601.
OMAiFTQDWAS.

Family and domain databases

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 nameiF8AM17_METOI
AccessioniPrimary (citable) accession number: F8AM17
Entry historyi
Integrated into UniProtKB/TrEMBL: September 21, 2011
Last sequence update: September 21, 2011
Last modified: November 30, 2016
This is version 39 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.