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P24297 (RUBR_PYRFU) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 106. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Rubredoxin

Short name=Rd
Gene names
Name:rub
Ordered Locus Names:PF1282
OrganismPyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) [Reference proteome] [HAMAP]
Taxonomic identifier186497 [NCBI]
Taxonomic lineageArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus

Protein attributes

Sequence length54 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Rubredoxin is a small nonheme, iron protein lacking acid-labile sulfide. Its single Fe, chelated to 4 Cys, functions as an electron acceptor and may also stabilize the conformation of the molecule.

Cofactor

Binds 1 Fe3+ ion per subunit.

Sequence similarities

Belongs to the rubredoxin family.

Contains 1 rubredoxin-like domain.

Biophysicochemical properties

Temperature dependence:

Extremely thermostable, being unaffected after incubation for 24 hours at 95 degrees Celsius.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Initiator methionine11Removed Ref.3
Chain2 – 5453Rubredoxin
PRO_0000135063

Regions

Domain2 – 5251Rubredoxin-like

Sites

Metal binding61Iron
Metal binding91Iron
Metal binding391Iron
Metal binding421Iron

Secondary structure

................ 54
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P24297 [UniParc].

Last modified January 23, 2007. Version 2.
Checksum: 7181BBB4A3E8B1A8

FASTA546,027
        10         20         30         40         50 
MAKWVCKICG YIYDEDAGDP DNGISPGTKF EELPDDWVCP ICGAPKSEFE KLED 

« Hide

References

« Hide 'large scale' references
[1]"Anaerobic microbes: oxygen detoxification without superoxide dismutase."
Jenney F.E. Jr., Verhagen M.F.J.M., Cui X., Adams M.W.W.
Science 286:306-309(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: ATCC 43587 / DSM 3638 / JCM 8422 / Vc1.
[2]"Divergence of the hyperthermophilic archaea Pyrococcus furiosus and P. horikoshii inferred from complete genomic sequences."
Maeder D.L., Weiss R.B., Dunn D.M., Cherry J.L., Gonzalez J.M., DiRuggiero J., Robb F.T.
Genetics 152:1299-1305(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 43587 / DSM 3638 / JCM 8422 / Vc1.
[3]"Determinants of protein hyperthermostability: purification and amino acid sequence of rubredoxin from the hyperthermophilic archaebacterium Pyrococcus furiosus and secondary structure of the zinc adduct by NMR."
Blake P.R., Park J.-B., Bryant F.O., Aono S., Magnuson J.K., Eccleston E., Howard J.B., Summers M.F., Adams M.W.W.
Biochemistry 30:10885-10895(1991) [PubMed] [Europe PMC] [Abstract]
Cited for: PROTEIN SEQUENCE OF 2-54.
Strain: ATCC 43587 / DSM 3638 / JCM 8422 / Vc1.
[4]"X-ray crystal structures of the oxidized and reduced forms of the rubredoxin from the marine hyperthermophilic archaebacterium Pyrococcus furiosus."
Day M.W., Hsu B.T., Joshua-Tor L., Park J.-B., Zhou Z.H., Adams M.W.W., Rees D.C.
Protein Sci. 1:1494-1507(1992) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS).
[5]"Solution-state structure by NMR of zinc-substituted rubredoxin from the marine hyperthermophilic archaebacterium Pyrococcus furiosus."
Blake P.R., Park J.-B., Zhou Z.H., Hare D.R., Adams M.W.W., Summers M.F.
Protein Sci. 1:1508-1521(1992) [PubMed] [Europe PMC] [Abstract]
Cited for: STRUCTURE BY NMR.
[6]"Comparison of the X-ray structure of native rubredoxin from Pyrococcus furiosus with the NMR structure of the zinc-substituted protein."
Blake P.R., Day M.W., Hsu B.T., Joshua-Tor L., Park J.-B., Hare D.R., Adams M.W.W., Rees D.C., Summers M.F.
Protein Sci. 1:1522-1525(1992) [PubMed] [Europe PMC] [Abstract]
Cited for: COMPARISON OF NMR STRUCTURE WITH X-RAY STRUCTURE.
[7]"Crystal structure of rubredoxin from Pyrococcus furiosus at 0.95-A resolution, and the structures of N-terminal methionine and formylmethionine variants of Pf Rd. Contributions of N-terminal interactions to thermostability."
Bau R., Rees D.C., Kurtz D.M. Jr., Scott R.A., Huang H., Adams M.W.W., Eidsness M.K.
J. Biol. Inorg. Chem. 3:484-493(1998)
Cited for: X-RAY CRYSTALLOGRAPHY (1.1 ANGSTROMS).
[8]"Contribution of surface salt bridges to protein stability."
Strop P., Mayo S.L.
Biochemistry 39:1251-1255(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: STRUCTURE BY NMR.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF156097 Genomic DNA. Translation: AAF03228.1.
AE009950 Genomic DNA. Translation: AAL81406.1.
PIRRUPF. T44570.
RefSeqNP_579011.1. NC_003413.1.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1BQ8X-ray1.10A1-54[»]
1BQ9X-ray1.20A1-54[»]
1BRFX-ray0.95A2-54[»]
1CAAX-ray1.80A2-54[»]
1CADX-ray1.80A2-54[»]
1IU5X-ray1.50A2-53[»]
1IU6neutron diffraction1.60A2-53[»]
1QCVNMR-A2-54[»]
1RWDNMR-A2-53[»]
1VCXneutron diffraction1.50A2-53[»]
1ZRPNMR-A2-54[»]
2PVXX-ray1.04A/B/C/D/E/F/G/H3-54[»]
3KYUX-ray1.10A1-54[»]
3KYVX-ray1.10A1-54[»]
3KYWX-ray1.10A1-54[»]
3KYXOther1.68A1-54[»]
3KYYX-ray1.10A1-54[»]
3RYGneutron diffraction1.75A1-54[»]
3RZ6neutron diffraction1.75A1-54[»]
3RZTneutron diffraction1.75A1-54[»]
3SS2neutron diffraction1.75A1-54[»]
4AR3neutron diffraction1.05A1-54[»]
4AR4neutron diffraction1.38A1-54[»]
4AR5X-ray1.00A1-54[»]
4AR6X-ray0.92A1-54[»]
4K9Fneutron diffraction1.75A1-54[»]
ProteinModelPortalP24297.
SMRP24297. Positions 1-54.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING186497.PF1282.

Proteomic databases

PRIDEP24297.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAL81406; AAL81406; PF1282.
GeneID1469155.
KEGGpfu:PF1282.

Phylogenomic databases

eggNOGCOG1773.
HOGENOMHOG000223371.
OMAFEMIAIG.
ProtClustDBCLSK253564.

Family and domain databases

Gene3D2.20.28.10. 1 hit.
InterProIPR024922. Rubredoxin.
IPR024934. Rubredoxin-like_dom.
IPR004039. Rubredoxin-type_fold.
IPR024935. Rubredoxin_dom.
IPR018527. Rubredoxin_Fe_BS.
[Graphical view]
PfamPF00301. Rubredoxin. 1 hit.
[Graphical view]
PIRSFPIRSF000071. Rubredoxin. 1 hit.
PRINTSPR00163. RUBREDOXIN.
PROSITEPS00202. RUBREDOXIN. 1 hit.
PS50903. RUBREDOXIN_LIKE. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP24297.

Entry information

Entry nameRUBR_PYRFU
AccessionPrimary (citable) accession number: P24297
Secondary accession number(s): Q9UWP6
Entry history
Integrated into UniProtKB/Swiss-Prot: March 1, 1992
Last sequence update: January 23, 2007
Last modified: February 19, 2014
This is version 106 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references