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Protein

Desulfoferrodoxin

Gene

dfx

Organism
Desulfarculus baarsii (strain ATCC 33931 / DSM 2075 / VKM B-1802 / 2st14)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-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

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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi10 – 101Iron 1
Metal bindingi13 – 131Iron 1
Metal bindingi29 – 291Iron 1
Metal bindingi30 – 301Iron 1
Metal bindingi49 – 491Iron 2; catalytic
Metal bindingi69 – 691Iron 2; catalytic
Metal bindingi75 – 751Iron 2; catalytic
Metal bindingi116 – 1161Iron 2; catalytic
Metal bindingi119 – 1191Iron 2; catalytic

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Detoxification, Electron transport, Transport

Keywords - Ligandi

Iron, Metal-binding

Enzyme and pathway databases

BioCyciDBAA644282:GH2J-2085-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)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi47 – 471E → A: No effect. 1 Publication
Mutagenesisi48 – 481K → I: Decrease in reaction rate. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemoved1 Publication
Chaini2 – 126125DesulfoferrodoxinPRO_0000140863Add
BLAST

Interactioni

Subunit structurei

Homodimer.2 Publications

Protein-protein interaction databases

STRINGi644282.Deba_2050.

Structurei

Secondary structure

1
126
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi7 – 93Combined sources
Turni11 – 133Combined sources
Beta strandi16 – 216Combined sources
Beta strandi27 – 293Combined sources
Beta strandi42 – 443Combined sources
Helixi46 – 494Combined sources
Beta strandi50 – 567Combined sources
Beta strandi59 – 646Combined sources
Turni65 – 684Combined sources
Beta strandi73 – 753Combined sources
Beta strandi77 – 848Combined sources
Beta strandi87 – 926Combined sources
Beta strandi99 – 1046Combined sources
Beta strandi111 – 1166Combined sources
Turni117 – 1193Combined sources
Beta strandi120 – 1256Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
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. Positions 2-126.
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.
InterProiIPR002742. Desulfoferrodoxin_Fe-bd_dom.
IPR004793. Desulfoferrodoxin_rbo.
IPR004462. Desulforodoxin.
[Graphical view]
PfamiPF06397. Desulfoferrod_N. 1 hit.
PF01880. Desulfoferrodox. 1 hit.
[Graphical view]
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.
PATRICi42299615. VBIDesBaa100999_2101.

Cross-referencesi

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.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
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. Positions 2-126.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi644282.Deba_2050.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADK85415; ADK85415; Deba_2050.
KEGGidbr:Deba_2050.
PATRICi42299615. VBIDesBaa100999_2101.

Phylogenomic databases

eggNOGiENOG4105MAX. Bacteria.
COG2033. LUCA.
HOGENOMiHOG000008863.
KOiK05919.
OMAiAGELVCC.
OrthoDBiPOG091H0JU2.

Enzyme and pathway databases

BioCyciDBAA644282:GH2J-2085-MONOMER.
BRENDAi1.15.1.2. 1883.

Miscellaneous databases

EvolutionaryTraceiQ46495.

Family and domain databases

CDDicd00974. DSRD. 1 hit.
InterProiIPR002742. Desulfoferrodoxin_Fe-bd_dom.
IPR004793. Desulfoferrodoxin_rbo.
IPR004462. Desulforodoxin.
[Graphical view]
PfamiPF06397. Desulfoferrod_N. 1 hit.
PF01880. Desulfoferrodox. 1 hit.
[Graphical view]
SUPFAMiSSF49367. SSF49367. 1 hit.
TIGRFAMsiTIGR00319. desulf_FeS4. 1 hit.
TIGR00320. dfx_rbo. 1 hit.
TIGR00332. neela_ferrous. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiDFX_DESB2
AccessioniPrimary (citable) accession number: Q46495
Secondary accession number(s): E1QI98
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: January 23, 2007
Last modified: September 7, 2016
This is version 111 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

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

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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.