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Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

Organism
Staphylothermus hellenicus (strain DSM 12710 / JCM 10830 / BK20S6-10-b1 / P8)
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)LengthDescriptionGraphical viewFeature identifierActions
Active sitei162 – 1621Proton acceptorUniRule annotation
Binding sitei164 – 1641SubstrateUniRule annotation
Metal bindingi188 – 1881Magnesium; via carbamate groupUniRule annotation
Metal bindingi190 – 1901MagnesiumUniRule annotation
Metal bindingi191 – 1911MagnesiumUniRule annotation
Active sitei280 – 2801Proton acceptorUniRule annotation
Binding sitei281 – 2811SubstrateUniRule annotation
Binding sitei313 – 3131SubstrateUniRule annotation
Sitei321 – 3211Transition state stabilizerUniRule annotation

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

Enzyme and pathway databases

BioCyciSHEL591019:GC4A-1449-MONOMER.

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:Shell_1412Imported
OrganismiStaphylothermus hellenicus (strain DSM 12710 / JCM 10830 / BK20S6-10-b1 / P8)Imported
Taxonomic identifieri591019 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiDesulfurococcalesDesulfurococcaceaeStaphylothermus
ProteomesiUP000002573 Componenti: Chromosome

PTM / Processingi

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei188 – 1881N6-carboxylysineUniRule annotation

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

STRINGi591019.Shell_1412.

Structurei

3D structure databases

ProteinModelPortaliD7D9Q5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni366 – 3683Substrate bindingUniRule annotation
Regioni388 – 3914Substrate bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

HOGENOMiHOG000230831.
KOiK01601.
OMAiFTQDWAS.

Family and domain databases

Gene3Di3.20.20.110. 1 hit.
3.30.70.150. 1 hit.
HAMAPiMF_01133. RuBisCO_L_type3.
InterProiIPR017712. RuBisCO_III.
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.
TIGRFAMsiTIGR03326. rubisco_III. 1 hit.

Sequencei

Sequence statusi: Complete.

D7D9Q5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSHTFEPYHS YVDKNYVPDP DNDIIAVFRI KPAKGFTIED AAGGVAAESS
60 70 80 90 100
TGTWTTLYPW YDTERVRKLS GKAYYFKDLG DGSWIVRIAY PAELFEEANM
110 120 130 140 150
PGLLASIAGN VFGMKRVEGL RLEDIYLPKK FLQYFKGPSK GVDGVRKIFG
160 170 180 190 200
INDRPIVGTV PKPKVGYSPE EVEKLAYELL VGGIDYIKDD ENMTSPSFCR
210 220 230 240 250
FSERAKHIMR AIDRAEKETG ERKVWFANIT SDIREMEKRL KLVADYGNPY
260 270 280 290 300
VMVDVVVTGW SALTYIRDLA EEYGLAIHAH RAMHSAFTRN PYHGISMYVL
310 320 330 340 350
AKLYRIIGVD QLHIGTAGVG KLEGGKIEVI RYARILREKH FKPDPDDIFH
360 370 380 390 400
LEQEMHHIKP AMPVSSGGLH PGNLPGVIEA LGTELILQIG GGVLGHPDGP
410 420 430 440
RAGAMAVRQS LEAILKGVPL DEYAKTHREL ARALEKWGFA KPI
Length:443
Mass (Da):49,518
Last modified:August 10, 2010 - v1
Checksum:i4C7B43A1C1960033
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002051 Genomic DNA. Translation: ADI32501.1.
RefSeqiWP_013143699.1. NC_014205.1.
YP_003669400.1. NC_014205.1.

Genome annotation databases

EnsemblBacteriaiADI32501; ADI32501; Shell_1412.
GeneIDi9234703.
KEGGishc:Shell_1412.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002051 Genomic DNA. Translation: ADI32501.1.
RefSeqiWP_013143699.1. NC_014205.1.
YP_003669400.1. NC_014205.1.

3D structure databases

ProteinModelPortaliD7D9Q5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi591019.Shell_1412.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADI32501; ADI32501; Shell_1412.
GeneIDi9234703.
KEGGishc:Shell_1412.

Phylogenomic databases

HOGENOMiHOG000230831.
KOiK01601.
OMAiFTQDWAS.

Enzyme and pathway databases

BioCyciSHEL591019:GC4A-1449-MONOMER.

Family and domain databases

Gene3Di3.20.20.110. 1 hit.
3.30.70.150. 1 hit.
HAMAPiMF_01133. RuBisCO_L_type3.
InterProiIPR017712. RuBisCO_III.
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.
TIGRFAMsiTIGR03326. rubisco_III. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "Complete sequence of Staphylothermus hellenicus DSM 12710."
    US DOE Joint Genome Institute
    Lucas S., Copeland A., Lapidus A., Cheng J.-F., Bruce D., Goodwin L., Pitluck S., Davenport K., Detter J.C., Han C., Tapia R., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Anderson I.J., Woyke T.
    Submitted (MAY-2010) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 12710 / JCM 10830 / BK20S6-10-b1 / P8Imported.

Entry informationi

Entry nameiD7D9Q5_STAHD
AccessioniPrimary (citable) accession number: D7D9Q5
Entry historyi
Integrated into UniProtKB/TrEMBL: August 10, 2010
Last sequence update: August 10, 2010
Last modified: July 22, 2015
This is version 37 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

External Data

Dasty 3

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 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.