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D3RYU4

- D3RYU4_FERPA

UniProt

D3RYU4 - D3RYU4_FERPA

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Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

Organism
Ferroglobus placidus (strain DSM 10642 / AEDII12DO)
Status
Unreviewed - 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

Binds 1 magnesium 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

  1. magnesium ion binding Source: UniProtKB-HAMAP
  2. oxidoreductase activity Source: UniProtKB-KW
  3. ribulose-bisphosphate carboxylase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. AMP catabolic process Source: UniProtKB-HAMAP
  2. carbon fixation Source: UniProtKB-KW
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

BioCyciFPLA589924:GHX0-1536-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:Ferp_1506Imported
OrganismiFerroglobus placidus (strain DSM 10642 / AEDII12DO)Imported
Taxonomic identifieri589924 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaArchaeoglobiArchaeoglobalesArchaeoglobaceaeFerroglobus
ProteomesiUP000002613: 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

Structurei

3D structure databases

ProteinModelPortaliD3RYU4.
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.

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:
EMBL
GenBank
DDBJ
Links Updated
CP001899 Genomic DNA. Translation: ADC65657.1.
RefSeqiYP_003435932.1. NC_013849.1.

Genome annotation databases

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

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001899 Genomic DNA. Translation: ADC65657.1 .
RefSeqi YP_003435932.1. NC_013849.1.

3D structure databases

ProteinModelPortali D3RYU4.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ADC65657 ; ADC65657 ; Ferp_1506 .
GeneIDi 8779026.
KEGGi fpl:Ferp_1506.

Phylogenomic databases

HOGENOMi HOG000230831.
KOi K01601.
OMAi FTQDWAS.

Enzyme and pathway databases

BioCyci FPLA589924:GHX0-1536-MONOMER.

Family and domain databases

Gene3Di 3.20.20.110. 1 hit.
3.30.70.150. 1 hit.
HAMAPi MF_01133. RuBisCO_L_type3.
InterProi IPR017712. RuBisCO_III.
IPR000685. RuBisCO_lsu_C.
IPR017443. RuBisCO_lsu_fd_N.
IPR017444. RuBisCO_lsu_N.
[Graphical view ]
Pfami PF00016. RuBisCO_large. 1 hit.
PF02788. RuBisCO_large_N. 1 hit.
[Graphical view ]
SUPFAMi SSF51649. SSF51649. 1 hit.
SSF54966. SSF54966. 1 hit.
TIGRFAMsi TIGR03326. rubisco_III. 1 hit.
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 10642 / AEDII12DOImported.

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: October 29, 2014
This is version 33 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

External Data

Dasty 3