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B8D5T5

- B8D5T5_DESK1

UniProt

B8D5T5 - B8D5T5_DESK1

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Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

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.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 sitei167 – 1671Proton acceptorUniRule annotation
Binding sitei169 – 1691SubstrateUniRule annotation
Metal bindingi193 – 1931Magnesium; via carbamate groupUniRule annotation
Metal bindingi195 – 1951MagnesiumUniRule annotation
Metal bindingi196 – 1961MagnesiumUniRule annotation
Active sitei285 – 2851Proton acceptorUniRule annotation
Binding sitei286 – 2861SubstrateUniRule annotation
Binding sitei318 – 3181SubstrateUniRule annotation
Sitei326 – 3261Transition 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 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-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

Protein-protein interaction databases

STRINGi490899.DKAM_1140.

Structurei

3D structure databases

ProteinModelPortaliB8D5T5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni371 – 3733Substrate bindingUniRule annotation
Regioni393 – 3964Substrate bindingUniRule annotation

Sequence similaritiesi

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

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

« Hide

        10         20         30         40         50
MKLMSGKFEF ETYHEYIDKN YTPDPSNDVI AVYRVKPAQG FTIEDAAGGV
60 70 80 90 100
AAESSTGTWT SLYNWYDVGR VRRLSGKAYY FKDLDDGSWI VKIAYPVELF
110 120 130 140 150
EEGNIPGLLA SIAGNIFGMK RVEGLRLEDI YLPKKFLESF KGPSKGLNGV
160 170 180 190 200
REIFGVKDRP IVGTVPKPKE GYSPEEVEKL ALELLSGGLD YIKDDENLTS
210 220 230 240 250
PSFCRFEARA KAIMKVIDKV EKETGERKVW FANITSDIRE MEKRLRLVAD
260 270 280 290 300
YGNPYIMVDV VITGWSALTY IRDLAEEYGL AIHGHRAMHA AFTRNPYHGI
310 320 330 340 350
SMYVLAKLYR IIGIDQLHIG TAGAGKLEGG KLDVIRYAKI LREIHFKPDP
360 370 380 390 400
DDMYHLEQPM HHIKPAMPVS SGGLHPGNLP PVIEALGTNL VLQIGGGVIG
410 420 430 440
HPDGPRAGAL AVRQALEAIM NNIPLDEYAK THRELARALE KWGFAKPI
Length:448
Mass (Da):49,948
Last modified:March 3, 2009 - v1
Checksum:i341A7EDE5549F78B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001140 Genomic DNA. Translation: ACL11466.1.
RefSeqiYP_002428833.1. NC_011766.1.

Genome annotation databases

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

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001140 Genomic DNA. Translation: ACL11466.1 .
RefSeqi 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 18924Imported.

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: November 26, 2014
This is version 39 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