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P29603

- FER_PYRFU

UniProt

P29603 - FER_PYRFU

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Protein

Ferredoxin

Gene

fdxA

Organism
Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli

Functioni

Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.

Cofactori

Binds 1 4Fe-4S cluster which readily converts to a stable 3Fe-4S form.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi12 – 121Iron-sulfur (4Fe-4S)
Metal bindingi15 – 151Iron-sulfur (4Fe-4S)
Metal bindingi18 – 181Iron-sulfur (4Fe-4S)
Metal bindingi57 – 571Iron-sulfur (4Fe-4S)

GO - Molecular functioni

  1. 3 iron, 4 sulfur cluster binding Source: UniProtKB-KW
  2. 4 iron, 4 sulfur cluster binding Source: UniProtKB-KW
  3. electron carrier activity Source: InterPro
  4. iron ion binding Source: InterPro

GO - Biological processi

  1. oxidation-reduction process Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

Electron transport, Transport

Keywords - Ligandi

3Fe-4S, 4Fe-4S, Iron, Iron-sulfur, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Ferredoxin
Gene namesi
Name:fdxA
Ordered Locus Names:PF1909
OrganismiPyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
Taxonomic identifieri186497 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
ProteomesiUP000001013: Chromosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi15 – 151D → C: No effect on the efficiency of electron transfer. 3 Publications
Mutagenesisi15 – 151D → S: The efficiency of electron transfer is compromised. 3 Publications
Mutagenesisi34 – 341A → C: The mixed spin cluster is converted into a homogeneous spin cluster (S=3/2). 2 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed
Chaini2 – 6766FerredoxinPRO_0000159199Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi22 ↔ 492 Publications

Keywords - PTMi

Disulfide bond

Proteomic databases

PRIDEiP29603.

Interactioni

Subunit structurei

Homodimer.Curated

Protein-protein interaction databases

STRINGi186497.PF1909.

Structurei

Secondary structure

1
67
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 75
Turni9 – 113
Helixi17 – 215
Turni23 – 253
Beta strandi26 – 283
Beta strandi34 – 374
Helixi44 – 5613
Beta strandi62 – 665

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1SIZX-ray2.25A/C2-67[»]
1SJ1X-ray1.50A/B2-67[»]
2Z8QX-ray1.70A/B2-67[»]
3PNIX-ray2.80A/B2-67[»]
4DHVX-ray1.95A/B2-67[»]
ProteinModelPortaliP29603.
SMRiP29603. Positions 2-67.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP29603.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini3 – 31294Fe-4S ferredoxin-type 1PROSITE-ProRule annotationAdd
BLAST
Domaini36 – 67324Fe-4S ferredoxin-type 2PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 2 4Fe-4S ferredoxin-type domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiCOG1141.
HOGENOMiHOG000044619.
KOiK05337.
OMAiANIYRSC.

Family and domain databases

InterProiIPR001080. 3Fe4S_ferredoxin.
IPR017896. 4Fe4S_Fe-S-bd.
[Graphical view]
PRINTSiPR00352. 3FE4SFRDOXIN.
PROSITEiPS51379. 4FE4S_FER_2. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P29603-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MAWKVSVDQD TCIGDAICAS LCPDVFEMND EGKAQPKVEV IEDEELYNCA
60
KEAMEACPVS AITIEEA
Length:67
Mass (Da):7,298
Last modified:January 23, 2007 - v2
Checksum:iAF9B062690B34420
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X79502 Genomic DNA. Translation: CAA56040.1.
AE009950 Genomic DNA. Translation: AAL82033.1.
PIRiA44203.
RefSeqiNP_579638.1. NC_003413.1.

Genome annotation databases

EnsemblBacteriaiAAL82033; AAL82033; PF1909.
GeneIDi1469789.
KEGGipfu:PF1909.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X79502 Genomic DNA. Translation: CAA56040.1 .
AE009950 Genomic DNA. Translation: AAL82033.1 .
PIRi A44203.
RefSeqi NP_579638.1. NC_003413.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1SIZ X-ray 2.25 A/C 2-67 [» ]
1SJ1 X-ray 1.50 A/B 2-67 [» ]
2Z8Q X-ray 1.70 A/B 2-67 [» ]
3PNI X-ray 2.80 A/B 2-67 [» ]
4DHV X-ray 1.95 A/B 2-67 [» ]
ProteinModelPortali P29603.
SMRi P29603. Positions 2-67.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 186497.PF1909.

Proteomic databases

PRIDEi P29603.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAL82033 ; AAL82033 ; PF1909 .
GeneIDi 1469789.
KEGGi pfu:PF1909.

Phylogenomic databases

eggNOGi COG1141.
HOGENOMi HOG000044619.
KOi K05337.
OMAi ANIYRSC.

Miscellaneous databases

EvolutionaryTracei P29603.

Family and domain databases

InterProi IPR001080. 3Fe4S_ferredoxin.
IPR017896. 4Fe4S_Fe-S-bd.
[Graphical view ]
PRINTSi PR00352. 3FE4SFRDOXIN.
PROSITEi PS51379. 4FE4S_FER_2. 2 hits.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Cloning, expression, and molecular characterization of the gene encoding an extremely thermostable [4Fe-4S] ferredoxin from the hyperthermophilic archaeon Pyrococcus furiosus."
    Heltzel A., Smith E.T., Zhou Z.H., Blamey J.M., Adams M.W.W.
    J. Bacteriol. 176:4790-4793(1994) [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. "Site-directed mutations of the 4Fe-ferredoxin from the hyperthermophilic archaeon Pyrococcus furiosus: role of the cluster-coordinating aspartate in physiological electron transfer reactions."
    Zhou Z.H., Adams M.W.W.
    Biochemistry 36:10892-10900(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: MUTAGENESIS OF ASP-15, CIRCULAR DICHROISM ANALYSIS, EPR SPECTROSCOPY.
  4. "Spectroscopic evidence for a new type of [Fe3S4] cluster in a mutant form of Pyrococcus furiosus ferredoxin."
    Duderstadt R.E., Brereton P.S., Adams M.W.W., Johnson M.K.
    J. Am. Chem. Soc. 120:8525-8526(1998)
    Cited for: MUTAGENESIS OF ALA-34, MAGNETIC CIRCULAR DICHROISM, EPR SPECTROSCOPY, RESONANCE RAMAN SPECTROSCOPY OF (3FE--4S) FORM.
  5. "Effect of serinate ligation at each of the iron sites of the [Fe4S4] cluster of Pyrococcus furiosus ferredoxin on the redox, spectroscopic, and biological properties."
    Brereton P.S., Duderstadt R.E., Staples C.R., Johnson M.K., Adams M.W.W.
    Biochemistry 38:10594-10605(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: MUTAGENESIS OF CYSTEINE RESIDUES, MAGNETIC CIRCULAR DICHROISM, EPR SPECTROSCOPY, RESONANCE RAMAN SPECTROSCOPY.
  6. "A pure S=3/2 [Fe4S4]+ cluster in the A33Y variant of Pyrococcus furiosus ferredoxin."
    Duderstadt R.E., Brereton P.S., Adams M.W.W., Johnson M.K.
    FEBS Lett. 454:21-26(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: MUTAGENESIS OF ALA-34, MAGNETIC CIRCULAR DICHROISM, EPR SPECTROSCOPY, RESONANCE RAMAN SPECTROSCOPY.
  7. "Proton NMR investigation of the oxidized three-iron clusters in the ferredoxins from the hyperthermophilic archae Pyrococcus furiosus and Thermococcus litoralis."
    Busse S.C., la Mar G.N., Yu L.P., Howard J.B., Smith E.T., Zhou Z.H., Adams M.W.W.
    Biochemistry 31:11952-11962(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR.
  8. "Solution 1H NMR determination of secondary structure for the three-iron form of ferredoxin from the hyperthermophilic archaeon Pyrococcus furiosus."
    Teng Q., Zhou Z.H., Smith E.T., Busse S.C., Howard J.B., Adams M.W.W., La Mar G.N.
    Biochemistry 33:6316-6326(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR OF 3FE--4S FORM.
  9. "1H NMR investigation of the electronic and molecular structure of the four-iron cluster ferredoxin from the hyperthermophile Pyrococcus furiosus. Identification of Asp 14 as a cluster ligand in each of the four redox states."
    Calzolai L., Gorst C.M., Zhou Z.H., Teng Q., Adams M.W.W., La Mar G.N.
    Biochemistry 34:11373-11384(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR.
  10. "1H NMR investigation of the paramagnetic cluster environment in Pyrococcus furiosus three-iron ferredoxin: sequence-specific assignment of ligated cysteines independent of tertiary structure."
    Gorst C.M., Yeh Y.-H., Teng Q., Calzolai L., Zhou Z.H., Adams M.W.W., La Mar G.N.
    Biochemistry 34:600-610(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR OF 3FE--4S FORM.
  11. "Participation of the disulfide bridge in the redox cycle of the ferredoxin from the hyperthermophile Pyrococcus furiosus: 1H nuclear magnetic resonance time resolution of the four redox states at ambient temperature."
    Gorst C.M., Zhou Z.H., Teng Q., Howard J.B., Adams M.W.W., La Mar G.N.
    Biochemistry 34:8788-8795(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR, DISULFIDE BOND.
  12. "Role of cluster-ligated aspartate in gating electron transfer in the four-iron ferredoxin from the hyperthermophilic archaeon Pyrococcus furiosus."
    Calzolai L., Zhou Z.H., Adams M.W.W., La Mar G.N.
    J. Am. Chem. Soc. 118:2513-2514(1996)
    Cited for: STRUCTURE BY NMR, MUTAGENESIS OF ASP-15.
  13. "Solution NMR study of the electronic structure and magnetic properties of cluster ligation mutants of the four-iron ferredoxin from the hyperthermophilic archaeon Pyrococcus furiosus."
    Calzolai L., Gorst C.M., Bren K.L., Zhou Z.H., Adams M.W.W., La Mar G.N.
    J. Am. Chem. Soc. 119:9341-9350(1997)
    Cited for: STRUCTURE BY NMR, MUTAGENESIS OF ASP-15.
  14. "Solution NMR characterization of the thermodynamics of the disulfide bond orientational isomerism and its effect of cluster electronic properties for the hyperthermostable three-iron cluster ferredoxin from the archaeon Pyrococcus furiosus."
    Webba da Silva M., Sham S., Gorst C.M., Calzolai L., Brereton P.S., Adams M.W.W., La Mar G.N.
    Biochemistry 40:12575-12583(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR OF 3FE--4S FORM.
  15. "The 1.5 A resolution crystal structure of [Fe3S4]-ferredoxin from the hyperthermophilic archaeon Pyrococcus furiosus."
    Nielsen M.S., Harris P., Ooi B.L., Christensen H.E.
    Biochemistry 43:5188-5194(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.5 ANGSTROMS) IN COMPLEX WITH IRON-SULFUR CLUSTER, SUBUNIT.

Entry informationi

Entry nameiFER_PYRFU
AccessioniPrimary (citable) accession number: P29603
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1993
Last sequence update: January 23, 2007
Last modified: October 29, 2014
This is version 112 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3