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A3DND9

- A3DND9_STAMF

UniProt

A3DND9 - A3DND9_STAMF

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Protein

Ribulose bisphosphate carboxylase

Gene

rbcL

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.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 sitei162 – 1621Proton acceptorUniRule annotation
Binding sitei164 – 1641SubstrateUniRule annotation
Metal bindingi188 – 1881Magnesium; via carbamate groupUniRule annotation
Metal bindingi190 – 1901MagnesiumUniRule annotation
Metal bindingi191 – 1911MagnesiumUniRule annotation
Active sitei280 – 2801Proton acceptorUniRule annotation
Binding sitei281 – 2811SubstrateUniRule annotation
Binding sitei313 – 3131SubstrateUniRule annotation
Sitei321 – 3211Transition 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

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-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

STRINGi399550.Smar_1051.

Structurei

3D structure databases

ProteinModelPortaliA3DND9.
SMRiA3DND9. Positions 11-442.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni366 – 3683Substrate bindingUniRule annotation
Regioni388 – 3914Substrate bindingUniRule annotation

Sequence similaritiesi

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

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

« Hide

        10         20         30         40         50
MPHKFEPYHS YIDKNYVPDL ENDIIAVFRI KPAKGFTIED AAGGVAAESS
60 70 80 90 100
TGTWTTLYPW YNTERVRKLS GKAYYFKDLG DGSWIVRIAY PVELFEEANM
110 120 130 140 150
PGLLASIAGN VFGMKRVEGL RLEDIYLPKK FLQYFKGPSK GVEGVKKIFR
160 170 180 190 200
VTDRPIVGTV PKPKVGYSPE EVEKLAYELL VGGMDYIKDD ENLTSPSFCR
210 220 230 240 250
FSERAKHIMR AIDRAEKETG ERKVWFANIT SDIREMEKRL KLVADYDNPY
260 270 280 290 300
VMVDVVVTGW STLTYIRDLA EEYGLAIHAH RAMHAAFTRN PYHGISMYVL
310 320 330 340 350
AKLYRIIGVD QLHIGTAGVG KLEGGKIDVI RYARILREKH FKPDPDDVFH
360 370 380 390 400
IEQEMYHIKP AMPVSSGGLH PGNLPGVIDA LGTELVLQIG GGVLGHPDGP
410 420 430 440
RAGAMAVRQS LEAILKGIPL DEYAKTHREL ARALEKWGFA KPI
Length:443
Mass (Da):49,740
Last modified:March 20, 2007 - v1
Checksum:iC5D759EF6DED7861
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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 / F1Imported.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43588 / DSM 3639 / F1Imported.

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: November 26, 2014
This is version 54 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