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Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

Organism
Ferroglobus placidus (strain DSM 10642 / AEDII12DO)
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 sitei162Proton acceptorUniRule annotation1
Binding sitei164SubstrateUniRule annotation1
Metal bindingi188Magnesium; via carbamate groupUniRule annotation1
Metal bindingi190MagnesiumUniRule annotation1
Metal bindingi191MagnesiumUniRule annotation1
Active sitei280Proton acceptorUniRule annotation1
Binding sitei281SubstrateUniRule annotation1
Binding sitei313SubstrateUniRule annotation1
Sitei321Transition 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:Ferp_1506Imported
OrganismiFerroglobus placidus (strain DSM 10642 / AEDII12DO)Imported
Taxonomic identifieri589924 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaArchaeoglobiArchaeoglobalesArchaeoglobaceaeFerroglobus
Proteomesi
  • UP000002613 Componenti: Chromosome

PTM / Processingi

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei188N6-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

STRINGi589924.Ferp_1506.

Structurei

3D structure databases

ProteinModelPortaliD3RYU4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini12 – 130RuBisCO_large_NInterPro annotationAdd BLAST119
Domaini141 – 437RuBisCO_largeInterPro annotationAdd BLAST297

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni366 – 368Substrate bindingUniRule annotation3
Regioni388 – 391Substrate bindingUniRule annotation4

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiarCOG04443. Archaea.
COG1850. LUCA.
HOGENOMiHOG000230831.
KOiK01601.
OMAiFTQDWAS.

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.

D3RYU4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAERYGEIYD YYVDESYEPN RKRDVIAVFK ITPAEGYTIK ECAGGVAAES
60 70 80 90 100
STGTWTTLYP WYEEERWKDL SAKAYEFVEH DGSWIVKIAY PYHAFEERNL
110 120 130 140 150
PALLASIAGN VFGMRRVKAL RLEDLYLPEK LIREFKGPSK GIEGVRKMLE
160 170 180 190 200
IKDRPIYGVV PKPKVGYSAE EFESLAYDLL SSGADYIKDD ENLASPWYNR
210 220 230 240 250
FEERARIVSR VIEKVESETG EKKTWFANIT ANVKEMERRL EILAEHNLKH
260 270 280 290 300
AMVDVVICGW AVLEHIRDIA EDYNLAIHGH RAMHAAFTRN PQHGISMFVL
310 320 330 340 350
AKLYRLIGID QLHVGTAGAG KLEGGKWEVI QNARILREMH YKPEEGDVFH
360 370 380 390 400
LEQKFYSIKP AFPVSSGGLH PGNLAQVFEA LGTDIVIQVG GGTVGHPDGP
410 420 430 440
KAGAKAVRQA IDAIMQGIPL EEYAKKHKEL ARALEKWGTV TPI
Length:443
Mass (Da):50,008
Last modified:April 20, 2010 - v1
Checksum:i0C8405ED8D8D00A3
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001899 Genomic DNA. Translation: ADC65657.1.
RefSeqiWP_012965998.1. NC_013849.1.

Genome annotation databases

EnsemblBacteriaiADC65657; ADC65657; Ferp_1506.
GeneIDi8779026.
KEGGifpl:Ferp_1506.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001899 Genomic DNA. Translation: ADC65657.1.
RefSeqiWP_012965998.1. NC_013849.1.

3D structure databases

ProteinModelPortaliD3RYU4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi589924.Ferp_1506.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADC65657; ADC65657; Ferp_1506.
GeneIDi8779026.
KEGGifpl:Ferp_1506.

Phylogenomic databases

eggNOGiarCOG04443. Archaea.
COG1850. LUCA.
HOGENOMiHOG000230831.
KOiK01601.
OMAiFTQDWAS.

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 nameiD3RYU4_FERPA
AccessioniPrimary (citable) accession number: D3RYU4
Entry historyi
Integrated into UniProtKB/TrEMBL: April 20, 2010
Last sequence update: April 20, 2010
Last modified: November 30, 2016
This is version 48 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 proteome, Reference 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.