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A3DND9

- A3DND9_STAMF

UniProt

A3DND9 - A3DND9_STAMF

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Protein

Ribulose bisphosphate carboxylase

Gene
rbcL, Smar_1051
Organism
Staphylothermus marinus (strain ATCC 43588 / DSM 3639 / F1)
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 sitei162 – 1621Proton acceptor By similarityUniRule annotation
Binding sitei164 – 1641Substrate By similarityUniRule annotation
Metal bindingi188 – 1881Magnesium; via carbamate group By similarityUniRule annotation
Metal bindingi190 – 1901Magnesium By similarityUniRule annotation
Metal bindingi191 – 1911Magnesium By similarityUniRule annotation
Active sitei280 – 2801Proton acceptor By similarityUniRule annotation
Binding sitei281 – 2811Substrate By similarityUniRule annotation
Binding sitei313 – 3131Substrate By similarityUniRule annotation
Sitei321 – 3211Transition 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

BioCyciSMAR399550:GHK2-1083-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:Smar_1051Imported
OrganismiStaphylothermus marinus (strain ATCC 43588 / DSM 3639 / F1)Imported
Taxonomic identifieri399550 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiDesulfurococcalesDesulfurococcaceaeStaphylothermus
ProteomesiUP000000254: Chromosome

PTM / Processingi

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei188 – 1881N6-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

STRINGi399550.Smar_1051.

Structurei

3D structure databases

ProteinModelPortaliA3DND9.
SMRiA3DND9. Positions 11-442.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni366 – 3683Substrate binding By similarityUniRule annotation
Regioni388 – 3914Substrate binding By similarityUniRule annotation

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG1850.
HOGENOMiHOG000230831.
KOiK01601.
OMAiDDEICAN.

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.

A3DND9-1 [UniParc]FASTAAdd to Basket

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MPHKFEPYHS YIDKNYVPDL ENDIIAVFRI KPAKGFTIED AAGGVAAESS    50
TGTWTTLYPW YNTERVRKLS GKAYYFKDLG DGSWIVRIAY PVELFEEANM 100
PGLLASIAGN VFGMKRVEGL RLEDIYLPKK FLQYFKGPSK GVEGVKKIFR 150
VTDRPIVGTV PKPKVGYSPE EVEKLAYELL VGGMDYIKDD ENLTSPSFCR 200
FSERAKHIMR AIDRAEKETG ERKVWFANIT SDIREMEKRL KLVADYDNPY 250
VMVDVVVTGW STLTYIRDLA EEYGLAIHAH RAMHAAFTRN PYHGISMYVL 300
AKLYRIIGVD QLHIGTAGVG KLEGGKIDVI RYARILREKH FKPDPDDVFH 350
IEQEMYHIKP AMPVSSGGLH PGNLPGVIDA LGTELVLQIG GGVLGHPDGP 400
RAGAMAVRQS LEAILKGIPL DEYAKTHREL ARALEKWGFA KPI 443
Length:443
Mass (Da):49,740
Last modified:March 20, 2007 - v1
Checksum:iC5D759EF6DED7861
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000575 Genomic DNA. Translation: ABN70149.1.
RefSeqiWP_011839340.1. NC_009033.1.
YP_001041057.1. NC_009033.1.

Genome annotation databases

EnsemblBacteriaiABN70149; ABN70149; Smar_1051.
GeneIDi4906732.
KEGGismr:Smar_1051.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000575 Genomic DNA. Translation: ABN70149.1 .
RefSeqi WP_011839340.1. NC_009033.1.
YP_001041057.1. NC_009033.1.

3D structure databases

ProteinModelPortali A3DND9.
SMRi A3DND9. Positions 11-442.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 399550.Smar_1051.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABN70149 ; ABN70149 ; Smar_1051 .
GeneIDi 4906732.
KEGGi smr:Smar_1051.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci SMAR399550:GHK2-1083-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. "The complete genome sequence of Staphylothermus marinus reveals differences in sulfur metabolism among heterotrophic Crenarchaeota."
    Anderson I.J., Dharmarajan L., Rodriguez J., Hooper S., Porat I., Ulrich L.E., Elkins J.G., Mavromatis K., Sun H., Land M., Lapidus A., Lucas S., Barry K., Huber H., Zhulin I.B., Whitman W.B., Mukhopadhyay B., Woese C., Bristow J., Kyrpides N.
    BMC Genomics 10:145-145(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43588 / DSM 3639 / F1.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43588 / DSM 3639 / F1.

Entry informationi

Entry nameiA3DND9_STAMF
AccessioniPrimary (citable) accession number: A3DND9
Entry historyi
Integrated into UniProtKB/TrEMBL: March 20, 2007
Last sequence update: March 20, 2007
Last modified: September 3, 2014
This is version 51 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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