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Protein

Desulfoferrodoxin

Gene

dfx

Organism
Desulfarculus baarsii (strain ATCC 33931 / DSM 2075 / VKM B-1802 / 2st14)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Catalyzes the one-electron reduction of superoxide anion radical to hydrogen peroxide at a nonheme ferrous iron center. Plays a fundamental role in case of oxidative stress via its superoxide detoxification activity.1 Publication

Miscellaneous

Catalysis occurs at center II. Fe2+ ion of center II is the electron donor and is converted to the Fe3+ form during the reaction.
The protein sequence in PubMed:10617593 comes from protein overexpressed and processed in E.coli.

Caution

Was originally thought to be a rubredoxin oxidoreductase.1 Publication

Catalytic activityi

Reduced rubredoxin + superoxide + 2 H+ = oxidized rubredoxin + H2O2.1 Publication

Cofactori

Protein has several cofactor binding sites:
  • Fe3+1 PublicationNote: Binds 1 Fe3+ ion per subunit. The iron ion 1 is coordinated via 4 cysteine residues.1 Publication
  • Cu2+1 PublicationNote: Binds 1 Fe2+ ion per subunit. The iron ion 2 is coordinated via four histidines and one cysteine residue.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi10Iron 11
Metal bindingi13Iron 11
Metal bindingi29Iron 11
Metal bindingi30Iron 11
Metal bindingi49Iron 2; catalytic1
Metal bindingi69Iron 2; catalytic1
Metal bindingi75Iron 2; catalytic1
Metal bindingi116Iron 2; catalytic1
Metal bindingi119Iron 2; catalytic1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionOxidoreductase
Biological processDetoxification, Electron transport, Transport
LigandIron, Metal-binding

Enzyme and pathway databases

BioCyciDBAA644282:G1GM5-2064-MONOMER
BRENDAi1.15.1.2 1883

Names & Taxonomyi

Protein namesi
Recommended name:
Desulfoferrodoxin (EC:1.15.1.2)
Short name:
Dfx
Alternative name(s):
Superoxide reductase
Short name:
SOR
Gene namesi
Name:dfx
Synonyms:rbo
Ordered Locus Names:Deba_2050
OrganismiDesulfarculus baarsii (strain ATCC 33931 / DSM 2075 / VKM B-1802 / 2st14)
Taxonomic identifieri644282 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfarculalesDesulfarculaceaeDesulfarculus
Proteomesi
  • UP000009047 Componenti: Chromosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi47E → A: No effect. 1 Publication1
Mutagenesisi48K → I: Decrease in reaction rate. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved1 Publication
ChainiPRO_00001408632 – 126DesulfoferrodoxinAdd BLAST125

Interactioni

Subunit structurei

Homodimer.2 Publications

Protein-protein interaction databases

STRINGi644282.Deba_2050

Structurei

Secondary structure

1126
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi7 – 9Combined sources3
Turni11 – 13Combined sources3
Beta strandi16 – 21Combined sources6
Beta strandi27 – 29Combined sources3
Beta strandi42 – 44Combined sources3
Helixi46 – 49Combined sources4
Beta strandi50 – 56Combined sources7
Beta strandi59 – 64Combined sources6
Turni65 – 68Combined sources4
Beta strandi73 – 75Combined sources3
Beta strandi77 – 84Combined sources8
Beta strandi87 – 92Combined sources6
Beta strandi99 – 104Combined sources6
Beta strandi111 – 116Combined sources6
Turni117 – 119Combined sources3
Beta strandi120 – 125Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1VZGX-ray1.69A/B1-126[»]
1VZHX-ray1.69A/B1-126[»]
1VZIX-ray1.15A/B1-126[»]
2JI1X-ray1.70A/B/C/D2-126[»]
2JI2X-ray1.70A/B/C/D2-126[»]
2JI3X-ray1.95A/B/C/D2-126[»]
ProteinModelPortaliQ46495
SMRiQ46495
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ46495

Family & Domainsi

Domaini

Is organized in two protein domains. The N-terminal domain has a fold similar to that of desulforedoxin and contains a mononuclear Fe3+ ion, center I. The second domain contains a different mononuclear iron center, center II, with a Fe2+ ion.

Sequence similaritiesi

Belongs to the desulfoferrodoxin family.Curated

Phylogenomic databases

eggNOGiENOG4105MAX Bacteria
COG2033 LUCA
HOGENOMiHOG000008863
KOiK05919
OMAiAGELVCC
OrthoDBiPOG091H0JU2

Family and domain databases

CDDicd00974 DSRD, 1 hit
Gene3Di2.20.28.100, 1 hit
2.60.40.730, 1 hit
InterProiView protein in InterPro
IPR002742 Desulfoferrodoxin_Fe-bd_dom
IPR036073 Desulfoferrodoxin_Fe-bd_dom_sf
IPR004793 Desulfoferrodoxin_rbo
IPR004462 Desulforodoxin
IPR038094 Desulforodoxin_dom_sf
PfamiView protein in Pfam
PF06397 Desulfoferrod_N, 1 hit
PF01880 Desulfoferrodox, 1 hit
SUPFAMiSSF49367 SSF49367, 1 hit
TIGRFAMsiTIGR00319 desulf_FeS4, 1 hit
TIGR00320 dfx_rbo, 1 hit
TIGR00332 neela_ferrous, 1 hit

Sequencei

Sequence statusi: Complete.

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

Q46495-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPERLQVYKC EVCGNIVEVL NGGIGELVCC NQDMKLMSEN TVDAAKEKHV
60 70 80 90 100
PVIEKIDGGY KVKVGAVAHP MEEKHYIQWI ELLADDKCYT QFLKPGQAPE
110 120
AVFLIEAAKV VAREYCNIHG HWKAEN
Length:126
Mass (Da):14,157
Last modified:January 23, 2007 - v3
Checksum:i558719E66B7FA5EC
GO

Mass spectrometryi

Molecular mass is 14028±2 Da from positions 2 - 126. Determined by ESI. 1 Publication

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X99543 Genomic DNA Translation: CAA67880.1
CP002085 Genomic DNA Translation: ADK85415.1
RefSeqiWP_013258856.1, NC_014365.1

Genome annotation databases

EnsemblBacteriaiADK85415; ADK85415; Deba_2050
KEGGidbr:Deba_2050

Similar proteinsi

Entry informationi

Entry nameiDFX_DESB2
AccessioniPrimary (citable) accession number: Q46495
Secondary accession number(s): E1QI98
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: January 23, 2007
Last modified: March 28, 2018
This is version 119 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

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

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