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B8D5T5

- B8D5T5_DESK1

UniProt

B8D5T5 - B8D5T5_DESK1

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Protein

Ribulose bisphosphate carboxylase

Gene
rbcL, DKAM_1140
Organism
Desulfurococcus kamchatkensis (strain 1221n / DSM 18924)
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 sitei167 – 1671Proton acceptor By similarityUniRule annotation
Binding sitei169 – 1691Substrate By similarityUniRule annotation
Metal bindingi193 – 1931Magnesium; via carbamate group By similarityUniRule annotation
Metal bindingi195 – 1951Magnesium By similarityUniRule annotation
Metal bindingi196 – 1961Magnesium By similarityUniRule annotation
Active sitei285 – 2851Proton acceptor By similarityUniRule annotation
Binding sitei286 – 2861Substrate By similarityUniRule annotation
Binding sitei318 – 3181Substrate By similarityUniRule annotation
Sitei326 – 3261Transition 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 annotation, OxidoreductaseUniRule annotation

Keywords - Biological processi

Carbon dioxide fixationUniRule annotation

Keywords - Ligandi

MagnesiumUniRule annotation, Metal-bindingUniRule annotation

Enzyme and pathway databases

BioCyciDKAM490899:GHYH-1171-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:DKAM_1140Imported
OrganismiDesulfurococcus kamchatkensis (strain 1221n / DSM 18924)Imported
Taxonomic identifieri490899 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiDesulfurococcalesDesulfurococcaceaeDesulfurococcus
ProteomesiUP000006903: Chromosome

PTM / Processingi

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei193 – 1931N6-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

Protein-protein interaction databases

STRINGi490899.DKAM_1140.

Structurei

3D structure databases

ProteinModelPortaliB8D5T5.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni371 – 3733Substrate binding By similarityUniRule annotation
Regioni393 – 3964Substrate binding By similarityUniRule annotation

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG1850.
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.

B8D5T5-1 [UniParc]FASTAAdd to Basket

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MKLMSGKFEF ETYHEYIDKN YTPDPSNDVI AVYRVKPAQG FTIEDAAGGV    50
AAESSTGTWT SLYNWYDVGR VRRLSGKAYY FKDLDDGSWI VKIAYPVELF 100
EEGNIPGLLA SIAGNIFGMK RVEGLRLEDI YLPKKFLESF KGPSKGLNGV 150
REIFGVKDRP IVGTVPKPKE GYSPEEVEKL ALELLSGGLD YIKDDENLTS 200
PSFCRFEARA KAIMKVIDKV EKETGERKVW FANITSDIRE MEKRLRLVAD 250
YGNPYIMVDV VITGWSALTY IRDLAEEYGL AIHGHRAMHA AFTRNPYHGI 300
SMYVLAKLYR IIGIDQLHIG TAGAGKLEGG KLDVIRYAKI LREIHFKPDP 350
DDMYHLEQPM HHIKPAMPVS SGGLHPGNLP PVIEALGTNL VLQIGGGVIG 400
HPDGPRAGAL AVRQALEAIM NNIPLDEYAK THRELARALE KWGFAKPI 448
Length:448
Mass (Da):49,948
Last modified:March 3, 2009 - v1
Checksum:i341A7EDE5549F78B
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001140 Genomic DNA. Translation: ACL11466.1.
RefSeqiWP_012608807.1. NC_011766.1.
YP_002428833.1. NC_011766.1.

Genome annotation databases

EnsemblBacteriaiACL11466; ACL11466; DKAM_1140.
GeneIDi7171232.
KEGGidka:DKAM_1140.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001140 Genomic DNA. Translation: ACL11466.1 .
RefSeqi WP_012608807.1. NC_011766.1.
YP_002428833.1. NC_011766.1.

3D structure databases

ProteinModelPortali B8D5T5.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 490899.DKAM_1140.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACL11466 ; ACL11466 ; DKAM_1140 .
GeneIDi 7171232.
KEGGi dka:DKAM_1140.

Phylogenomic databases

eggNOGi COG1850.
HOGENOMi HOG000230831.
KOi K01601.
OMAi FTQDWAS.

Enzyme and pathway databases

BioCyci DKAM490899:GHYH-1171-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 the anaerobic, protein-degrading hyperthermophilic crenarchaeon Desulfurococcus kamchatkensis."
    Ravin N.V., Mardanov A.V., Beletsky A.V., Kublanov I.V., Kolganova T.V., Lebedinsky A.V., Chernyh N.A., Bonch-Osmolovskaya E.A., Skryabin K.G.
    J. Bacteriol. 191:2371-2379(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 1221n / DSM 18924.

Entry informationi

Entry nameiB8D5T5_DESK1
AccessioniPrimary (citable) accession number: B8D5T5
Entry historyi
Integrated into UniProtKB/TrEMBL: March 3, 2009
Last sequence update: March 3, 2009
Last modified: September 3, 2014
This is version 36 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

Similar proteinsi