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Protein

Deferrochelatase/peroxidase EfeB

Gene

efeB

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Involved in the recovery of exogenous heme iron. Extracts iron from heme while preserving the tetrapyrrol ring intact. Also displays peroxidase activity on guaiacol in vitro.2 Publications

Cofactori

heme b1 PublicationNote: Binds 1 heme b (iron(II)-protoporphyrin IX) group non-covalently per subunit.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi329Iron (heme proximal ligand); via tele nitrogen1
Binding sitei347Heme1

GO - Molecular functioni

  • heme binding Source: EcoliWiki
  • metal ion binding Source: UniProtKB-KW
  • oxidoreductase activity, acting on a heme group of donors Source: EcoCyc
  • peroxidase activity Source: EcoliWiki

GO - Biological processi

  • cellular response to DNA damage stimulus Source: EcoliWiki
  • ferrous iron transport Source: InterPro
  • iron assimilation Source: EcoCyc
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase, Peroxidase

Keywords - Ligandi

Heme, Iron, Metal-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG11735-MONOMER.
ECOL316407:JW1004-MONOMER.
MetaCyc:EG11735-MONOMER.

Protein family/group databases

PeroxiBasei5870. EcoDyPrx01_K12.
TCDBi2.A.108.2.3. the iron/lead transporter (ilt) family.

Names & Taxonomyi

Protein namesi
Recommended name:
Deferrochelatase/peroxidase EfeB (EC:1.11.1.-)
Gene namesi
Name:efeB
Synonyms:ycdB
Ordered Locus Names:b1019, JW1004
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11735. efeB.

Subcellular locationi

GO - Cellular componenti

  • periplasmic space Source: EcoliWiki
Complete GO annotation...

Keywords - Cellular componenti

Periplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 35Tat-type signalAdd BLAST35
ChainiPRO_000001381736 – 423Deferrochelatase/peroxidase EfeBAdd BLAST388

Post-translational modificationi

Exported by the Tat system. The position of the signal peptide cleavage has been experimentally proven. Can also be exported by the Sec system.

Proteomic databases

EPDiP31545.
PaxDbiP31545.
PRIDEiP31545.

Expressioni

Inductioni

Repressed by Fur in the presence of iron. Repressed at high pH by the two-component regulatory system CpxA/CpxR.2 Publications

Interactioni

Subunit structurei

Homodimer. Part of a ferrous iron transporter composed of EfeU, EfeO and EfeB. However, this EfeUOB tripartite iron transporter is defective in E.coli strain K12 due to a frameshift mutation in EfeU.3 Publications

Protein-protein interaction databases

BioGridi4263253. 11 interactors.
IntActiP31545. 8 interactors.
STRINGi511145.b1019.

Structurei

Secondary structure

1423
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi49 – 51Combined sources3
Beta strandi58 – 60Combined sources3
Beta strandi62 – 66Combined sources5
Beta strandi70 – 79Combined sources10
Helixi84 – 103Combined sources20
Beta strandi125 – 127Combined sources3
Beta strandi133 – 139Combined sources7
Helixi140 – 143Combined sources4
Turni145 – 148Combined sources4
Helixi150 – 152Combined sources3
Helixi170 – 172Combined sources3
Beta strandi176 – 185Combined sources10
Helixi186 – 199Combined sources14
Turni201 – 203Combined sources3
Beta strandi204 – 213Combined sources10
Helixi216 – 220Combined sources5
Turni221 – 223Combined sources3
Beta strandi232 – 236Combined sources5
Helixi245 – 251Combined sources7
Helixi262 – 264Combined sources3
Beta strandi268 – 277Combined sources10
Helixi279 – 283Combined sources5
Helixi287 – 294Combined sources8
Turni298 – 300Combined sources3
Helixi315 – 317Combined sources3
Beta strandi322 – 324Combined sources3
Helixi329 – 333Combined sources5
Helixi340 – 343Combined sources4
Beta strandi350 – 356Combined sources7
Beta strandi362 – 373Combined sources12
Turni375 – 378Combined sources4
Helixi379 – 386Combined sources8
Helixi390 – 393Combined sources4
Beta strandi395 – 405Combined sources11
Helixi418 – 422Combined sources5

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2Y4DX-ray2.00A/B36-423[»]
2Y4EX-ray2.30A/B36-423[»]
2Y4FX-ray2.70A/B36-423[»]
ProteinModelPortaliP31545.
SMRiP31545.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP31545.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni236 – 238Heme binding3
Regioni334 – 336Heme binding3

Sequence similaritiesi

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiENOG4105DBE. Bacteria.
COG2837. LUCA.
HOGENOMiHOG000236941.
InParanoidiP31545.
KOiK16301.
OMAiVERWDRT.
PhylomeDBiP31545.

Family and domain databases

InterProiIPR011008. Dimeric_a/b-barrel.
IPR006314. Dyp_peroxidase.
IPR006313. EfeB.
IPR006311. TAT_signal.
[Graphical view]
PfamiPF04261. Dyp_perox. 1 hit.
[Graphical view]
SUPFAMiSSF54909. SSF54909. 1 hit.
TIGRFAMsiTIGR01413. Dyp_perox_fam. 1 hit.
TIGR01412. tat_substr_1. 1 hit.
PROSITEiPS51404. DYP_PEROXIDASE. 1 hit.
PS51318. TAT. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

P31545-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQYKDENGVN EPSRRRLLKV IGALALAGSC PVAHAQKTQS APGTLSPDAR
60 70 80 90 100
NEKQPFYGEH QAGILTPQQA AMMLVAFDVL ASDKADLERL FRLLTQRFAF
110 120 130 140 150
LTQGGAAPET PNPRLPPLDS GILGGYIAPD NLTITLSVGH SLFDERFGLA
160 170 180 190 200
PQMPKKLQKM TRFPNDSLDA ALCHGDVLLQ ICANTQDTVI HALRDIIKHT
210 220 230 240 250
PDLLSVRWKR EGFISDHAAR SKGKETPINL LGFKDGTANP DSQNDKLMQK
260 270 280 290 300
VVWVTADQQE PAWTIGGSYQ AVRLIQFRVE FWDRTPLKEQ QTIFGRDKQT
310 320 330 340 350
GAPLGMQHEH DVPDYASDPE GKVIALDSHI RLANPRTAES ESSLMLRRGY
360 370 380 390 400
SYSLGVTNSG QLDMGLLFVC YQHDLEKGFL TVQKRLNGEA LEEYVKPIGG
410 420
GYFFALPGVK DANDYFGSAL LRV
Length:423
Mass (Da):46,754
Last modified:November 1, 1997 - v2
Checksum:i65D381F829DB2570
GO

Mass spectrometryi

Molecular mass is 43814 Da from positions 36 - 423. Determined by ESI. 1 Publication

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC74104.1.
AP009048 Genomic DNA. Translation: BAA35800.1.
D10391 Genomic DNA. Translation: BAA01229.1.
PIRiA64844.
RefSeqiNP_415538.1. NC_000913.3.
WP_001199471.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC74104; AAC74104; b1019.
BAA35800; BAA35800; BAA35800.
GeneIDi946500.
KEGGiecj:JW1004.
eco:b1019.
PATRICi32117271. VBIEscCol129921_1059.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC74104.1.
AP009048 Genomic DNA. Translation: BAA35800.1.
D10391 Genomic DNA. Translation: BAA01229.1.
PIRiA64844.
RefSeqiNP_415538.1. NC_000913.3.
WP_001199471.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2Y4DX-ray2.00A/B36-423[»]
2Y4EX-ray2.30A/B36-423[»]
2Y4FX-ray2.70A/B36-423[»]
ProteinModelPortaliP31545.
SMRiP31545.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4263253. 11 interactors.
IntActiP31545. 8 interactors.
STRINGi511145.b1019.

Protein family/group databases

PeroxiBasei5870. EcoDyPrx01_K12.
TCDBi2.A.108.2.3. the iron/lead transporter (ilt) family.

Proteomic databases

EPDiP31545.
PaxDbiP31545.
PRIDEiP31545.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC74104; AAC74104; b1019.
BAA35800; BAA35800; BAA35800.
GeneIDi946500.
KEGGiecj:JW1004.
eco:b1019.
PATRICi32117271. VBIEscCol129921_1059.

Organism-specific databases

EchoBASEiEB1686.
EcoGeneiEG11735. efeB.

Phylogenomic databases

eggNOGiENOG4105DBE. Bacteria.
COG2837. LUCA.
HOGENOMiHOG000236941.
InParanoidiP31545.
KOiK16301.
OMAiVERWDRT.
PhylomeDBiP31545.

Enzyme and pathway databases

BioCyciEcoCyc:EG11735-MONOMER.
ECOL316407:JW1004-MONOMER.
MetaCyc:EG11735-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP31545.
PROiP31545.

Family and domain databases

InterProiIPR011008. Dimeric_a/b-barrel.
IPR006314. Dyp_peroxidase.
IPR006313. EfeB.
IPR006311. TAT_signal.
[Graphical view]
PfamiPF04261. Dyp_perox. 1 hit.
[Graphical view]
SUPFAMiSSF54909. SSF54909. 1 hit.
TIGRFAMsiTIGR01413. Dyp_perox_fam. 1 hit.
TIGR01412. tat_substr_1. 1 hit.
PROSITEiPS51404. DYP_PEROXIDASE. 1 hit.
PS51318. TAT. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiEFEB_ECOLI
AccessioniPrimary (citable) accession number: P31545
Secondary accession number(s): P75903
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 1, 1993
Last sequence update: November 1, 1997
Last modified: November 2, 2016
This is version 129 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. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.