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I3XT42

- I3XT42_9CREN

UniProt

I3XT42 - I3XT42_9CREN

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Protein

Ribulose bisphosphate carboxylase

Gene
rbcL, Desfe_1247
Organism
Desulfurococcus fermentans DSM 16532
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 By similarity.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 By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei164 – 1641Proton acceptor By similarityUniRule annotation
Binding sitei166 – 1661Substrate By similarityUniRule annotation
Metal bindingi190 – 1901Magnesium; via carbamate group By similarityUniRule annotation
Metal bindingi192 – 1921Magnesium By similarityUniRule annotation
Metal bindingi193 – 1931Magnesium By similarityUniRule annotation
Active sitei282 – 2821Proton acceptor By similarityUniRule annotation
Binding sitei283 – 2831Substrate By similarityUniRule annotation
Binding sitei315 – 3151Substrate By similarityUniRule annotation
Sitei323 – 3231Transition state stabilizer By similarityUniRule 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

BioCyciDFER768672:GLCL-1285-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
ORF Names:Desfe_1247Imported
OrganismiDesulfurococcus fermentans DSM 16532Imported
Taxonomic identifieri768672 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiDesulfurococcalesDesulfurococcaceaeDesulfurococcus
ProteomesiUP000006175: Chromosome

PTM / Processingi

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei190 – 1901N6-carboxylysine By similarityUniRule annotation

Interactioni

Subunit structurei

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

Structurei

3D structure databases

ProteinModelPortaliI3XT42.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni368 – 3703Substrate binding By similarityUniRule annotation
Regioni390 – 3934Substrate binding By similarityUniRule annotation

Sequence similaritiesi

Phylogenomic databases

KOiK01601.

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.

I3XT42-1 [UniParc]FASTAAdd to Basket

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MSGKFEFETY HEYIDKNYTP DPSNDVIAVY RVKPAQGFTI EDAAGGVAAE    50
SSTGTWTSLY NWYDVGRVRR LSGKAYYFKD LGDGSWIVKI AYPVELFEEG 100
NIPGLLASIA GNIFGMKRVE GLRLEDIYLP KKFLESFKGP SKGLNGVREI 150
FGIKDRPIVG TVPKPKEGYS PEEVEKLALE LLSGGLDYIK DDENLTSPSF 200
CRFEARAKAI MKVIDKVEKE TGERKVWFAN ITSDIREMER RLRLVADYGN 250
PYIMVDVVIA GWSALTYIRD LAEEYGLAIH GHRAMHAAFT RNPYHGISMY 300
VLAKLYRIIG IDQLHIGTAG AGKLEGGKLD VVRYAKILRE THFKPDPDDI 350
YHLEQPMHHI KPAMPVSSGG LHPGNLPPVI EALGTNLVLQ IGGGVIGHPD 400
GPRAGALAVR QALEAIMNNI PLDEYAKTHR ELARALEKWG FVKPI 445
Length:445
Mass (Da):49,514
Last modified:September 5, 2012 - v1
Checksum:i8D9CB8CBA1CB7A78
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP003321 Genomic DNA. Translation: AFL67116.1.
RefSeqiWP_014768010.1. NC_018001.1.
YP_006402691.1. NC_018001.1.

Genome annotation databases

EnsemblBacteriaiAFL67116; AFL67116; Desfe_1247.
GeneIDi13061643.
KEGGidfd:Desfe_1247.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP003321 Genomic DNA. Translation: AFL67116.1 .
RefSeqi WP_014768010.1. NC_018001.1.
YP_006402691.1. NC_018001.1.

3D structure databases

ProteinModelPortali I3XT42.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AFL67116 ; AFL67116 ; Desfe_1247 .
GeneIDi 13061643.
KEGGi dfd:Desfe_1247.

Phylogenomic databases

KOi K01601.

Enzyme and pathway databases

BioCyci DFER768672:GLCL-1285-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. "Complete Genome Sequence of Desulfurococcus fermentans, a Hyperthermophilic Cellulolytic Crenarchaeon Isolated from a Freshwater Hot Spring in Kamchatka, Russia."
    Susanti D., Johnson E.F., Rodriguez J.R., Anderson I., Perevalova A.A., Kyrpides N., Lucas S., Han J., Lapidus A., Cheng J.F., Goodwin L., Pitluck S., Mavrommatis K., Peters L., Land M.L., Hauser L., Gopalan V., Chan P.P.
    , Lowe T.M., Atomi H., Bonch-Osmolovskaya E.A., Woyke T., Mukhopadhyay B.
    J. Bacteriol. 194:5703-5704(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 16532Imported.

Entry informationi

Entry nameiI3XT42_9CREN
AccessioniPrimary (citable) accession number: I3XT42
Entry historyi
Integrated into UniProtKB/TrEMBL: September 5, 2012
Last sequence update: September 5, 2012
Last modified: September 3, 2014
This is version 15 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 By similarity.UniRule annotation

Keywords - Technical termi

Complete proteome

External Data

Dasty 3

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