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D3S3X8

- D3S3X8_METSF

UniProt

D3S3X8 - D3S3X8_METSF

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Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

Organism
Methanocaldococcus sp. (strain FS406-22)
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

Note: Binds 1 magnesium ion per subunit.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei153 – 1531Proton acceptorUniRule annotation
Binding sitei155 – 1551SubstrateUniRule annotation
Metal bindingi179 – 1791Magnesium; via carbamate groupUniRule annotation
Metal bindingi181 – 1811MagnesiumUniRule annotation
Metal bindingi182 – 1821MagnesiumUniRule annotation
Active sitei269 – 2691Proton acceptorUniRule annotation
Binding sitei270 – 2701SubstrateUniRule annotation
Binding sitei302 – 3021SubstrateUniRule annotation
Sitei309 – 3091Transition 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

BioCyciMSP644281:GI4H-868-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:MFS40622_0859Imported
OrganismiMethanocaldococcus sp. (strain FS406-22)Imported
Taxonomic identifieri644281 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanococciMethanococcalesMethanocaldococcaceaeMethanocaldococcus
ProteomesiUP000002189: Chromosome

PTM / Processingi

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei179 – 1791N6-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

ProteinModelPortaliD3S3X8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni353 – 3553Substrate bindingUniRule annotation
Regioni375 – 3784Substrate bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

HOGENOMiHOG000230831.
KOiK01601.
OMAiVIVTFRV.

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.

D3S3X8-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MDYINLNYTP NENDLLSCMI IKGENLEKLA NEIAGESSIG TWTKVQTMKS
60 70 80 90 100
DIYEKLRPKV YEIKEIGNDG KYKVGLIKIA YPLYDFEINN MPGVLAGIAG
110 120 130 140 150
NIFGMKIAKG LRILDFRFPE EFVKAYKGPR FGIEGVRETL KIKERPLLGT
160 170 180 190 200
IVKPKVGLKT EEHAKVAYEA WVGGVDLVKD DENLTSQEFN KFEDRIYKTL
210 220 230 240 250
EMRDKAEEET GERKAYMPNI TAPYREMIRR VEIAEDAGSE YVMIDVVVCG
260 270 280 290 300
FSAVQSFREE EFKFIIHAHR AMHAAMTRSR DFGISMLVLA KIYRLLGVDQ
310 320 330 340 350
LHIGTVVGKM EGGEKEVKSI RDEIVCDKVE ADDENKFFNQ EWFDIKPVFP
360 370 380 390 400
VSSGGVHPRL VPKIVEILGR DLIIQAGGGV HGHPDGTRAG AKAMRAAIEA
410 420
IIEGKSLEEK AEEVAELKKA LEYWK
Length:425
Mass (Da):47,959
Last modified:April 20, 2010 - v1
Checksum:iB582FABD358CCCCA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001901 Genomic DNA. Translation: ADC69542.1.
RefSeqiWP_012980451.1. NC_013887.1.
YP_003458278.1. NC_013887.1.

Genome annotation databases

EnsemblBacteriaiADC69542; ADC69542; MFS40622_0859.
GeneIDi8804702.
KEGGimfs:MFS40622_0859.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001901 Genomic DNA. Translation: ADC69542.1 .
RefSeqi WP_012980451.1. NC_013887.1.
YP_003458278.1. NC_013887.1.

3D structure databases

ProteinModelPortali D3S3X8.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ADC69542 ; ADC69542 ; MFS40622_0859 .
GeneIDi 8804702.
KEGGi mfs:MFS40622_0859.

Phylogenomic databases

HOGENOMi HOG000230831.
KOi K01601.
OMAi VIVTFRV.

Enzyme and pathway databases

BioCyci MSP644281:GI4H-868-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 sequence of chromosome of Methanocaldococcus sp. FS406-22."
    US DOE Joint Genome Institute
    Lucas S., Copeland A., Lapidus A., Cheng J.-F., Bruce D., Goodwin L., Pitluck S., Teshima H., Detter J.C., Han C., Tapia R., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Sieprawska-Lupa M., Leigh J., Whitman W.B., Woyke T.
    Submitted (FEB-2010) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: FS406-22Imported.

Entry informationi

Entry nameiD3S3X8_METSF
AccessioniPrimary (citable) accession number: D3S3X8
Entry historyi
Integrated into UniProtKB/TrEMBL: April 20, 2010
Last sequence update: April 20, 2010
Last modified: November 26, 2014
This is version 34 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

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