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Protein

Formate dehydrogenase, cytochrome b556(fdo) subunit

Gene

fdoI

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

Functioni

Allows to use formate as major electron donor during aerobic respiration. Subunit gamma is probably the cytochrome b556(FDO) component of the formate dehydrogenase.

Cofactori

hemeBy similarityNote: Binds 2 heme groups per subunit. Heme 1 is located at the cytoplasmic interface, heme 2 is located at the periplasmic interface. Electrons are transferred from the periplasmic to the cytoplasmic heme.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi18 – 181Iron (heme B 1 axial ligand)By similarity
Metal bindingi57 – 571Iron (heme B 2 axial ligand)By similarity
Metal bindingi153 – 1531Iron (heme B 2 axial ligand)By similarity
Metal bindingi167 – 1671Iron (heme B 1 axial ligand)By similarity

GO - Molecular functioni

GO - Biological processi

  • cellular respiration Source: EcoCyc
  • cellular response to DNA damage stimulus Source: EcoliWiki
  • formate oxidation Source: EcoCyc
  • respiratory electron transport chain Source: InterPro
Complete GO annotation...

Keywords - Biological processi

Electron transport, Transport

Keywords - Ligandi

Heme, Iron, Metal-binding

Enzyme and pathway databases

BioCyciEcoCyc:FDOI-MONOMER.
ECOL316407:JW3863-MONOMER.
MetaCyc:FDOI-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Formate dehydrogenase, cytochrome b556(fdo) subunit
Alternative name(s):
Aerobic formate dehydrogenase cytochrome b556 subunit
FDH-Z subunit gamma
Formate dehydrogenase-O subunit gamma
Gene namesi
Name:fdoI
Ordered Locus Names:b3892, JW3863
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11856. fdoI.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 1717CytoplasmicCuratedAdd
BLAST
Transmembranei18 – 3215HelicalCuratedAdd
BLAST
Topological domaini33 – 5321PeriplasmicCuratedAdd
BLAST
Transmembranei54 – 7219HelicalCuratedAdd
BLAST
Topological domaini73 – 11240CytoplasmicCuratedAdd
BLAST
Transmembranei113 – 13018HelicalCuratedAdd
BLAST
Topological domaini131 – 15121PeriplasmicCuratedAdd
BLAST
Transmembranei152 – 17019HelicalCuratedAdd
BLAST
Topological domaini171 – 21141CytoplasmicCuratedAdd
BLAST

GO - Cellular componenti

  • formate dehydrogenase complex Source: EcoCyc
  • integral component of membrane Source: GO_Central
  • integral component of plasma membrane Source: EcoCyc
  • plasma membrane Source: EcoCyc
Complete GO annotation...

Keywords - Cellular componenti

Cell inner membrane, Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 211211Formate dehydrogenase, cytochrome b556(fdo) subunitPRO_0000087213Add
BLAST

Proteomic databases

PaxDbiP0AEL0.

Interactioni

Subunit structurei

Formate dehydrogenase is a membrane-bound complex, formed by subunits alpha, beta and gamma.

Protein-protein interaction databases

BioGridi4262641. 15 interactions.
IntActiP0AEL0. 1 interaction.
STRINGi511145.b3892.

Structurei

3D structure databases

ProteinModelPortaliP0AEL0.
SMRiP0AEL0. Positions 7-209.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG4108MG3. Bacteria.
COG2864. LUCA.
HOGENOMiHOG000163500.
InParanoidiP0AEL0.
KOiK00127.
OMAiAFCFVFA.
OrthoDBiEOG6B8XH2.
PhylomeDBiP0AEL0.

Family and domain databases

InterProiIPR011577. Cyt_b561_bac/Ni-Hgenase.
IPR016174. Di-haem_cyt_TM.
IPR006471. Formate_DH_gsu.
[Graphical view]
PfamiPF01292. Ni_hydr_CYTB. 1 hit.
[Graphical view]
SUPFAMiSSF81342. SSF81342. 1 hit.
TIGRFAMsiTIGR01583. formate-DH-gamm. 1 hit.

Sequencei

Sequence statusi: Complete.

P0AEL0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKRRDTIVRY TAPERINHWI TAFCFILAAV SGLGFLFPSF NWLMQIMGTP
60 70 80 90 100
QLARILHPFV GVVMFASFII MFFRYWHHNL INRDDIFWAK NIRKIVVNEE
110 120 130 140 150
VGDTGRYNFG QKCVFWAAII FLVLLLVSGV IIWRPYFAPA FSIPVIRFAL
160 170 180 190 200
MLHSFAAVAL IVVIMVHIYA ALWVKGTITA MVEGWVTSAW AKKHHPRWYR
210
EVRKTTEKKA E
Length:211
Mass (Da):24,606
Last modified:December 20, 2005 - v1
Checksum:i166AC5A661C738D5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L19201 Genomic DNA. Translation: AAB03025.1.
U00096 Genomic DNA. Translation: AAD13454.1.
AP009048 Genomic DNA. Translation: BAE77417.1.
PIRiS40836.
RefSeqiNP_418328.1. NC_000913.3.
WP_000829013.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAD13454; AAD13454; b3892.
BAE77417; BAE77417; BAE77417.
GeneIDi948383.
KEGGiecj:JW3863.
eco:b3892.
PATRICi32123291. VBIEscCol129921_4006.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L19201 Genomic DNA. Translation: AAB03025.1.
U00096 Genomic DNA. Translation: AAD13454.1.
AP009048 Genomic DNA. Translation: BAE77417.1.
PIRiS40836.
RefSeqiNP_418328.1. NC_000913.3.
WP_000829013.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP0AEL0.
SMRiP0AEL0. Positions 7-209.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4262641. 15 interactions.
IntActiP0AEL0. 1 interaction.
STRINGi511145.b3892.

Proteomic databases

PaxDbiP0AEL0.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAD13454; AAD13454; b3892.
BAE77417; BAE77417; BAE77417.
GeneIDi948383.
KEGGiecj:JW3863.
eco:b3892.
PATRICi32123291. VBIEscCol129921_4006.

Organism-specific databases

EchoBASEiEB1802.
EcoGeneiEG11856. fdoI.

Phylogenomic databases

eggNOGiENOG4108MG3. Bacteria.
COG2864. LUCA.
HOGENOMiHOG000163500.
InParanoidiP0AEL0.
KOiK00127.
OMAiAFCFVFA.
OrthoDBiEOG6B8XH2.
PhylomeDBiP0AEL0.

Enzyme and pathway databases

BioCyciEcoCyc:FDOI-MONOMER.
ECOL316407:JW3863-MONOMER.
MetaCyc:FDOI-MONOMER.

Miscellaneous databases

PROiP0AEL0.

Family and domain databases

InterProiIPR011577. Cyt_b561_bac/Ni-Hgenase.
IPR016174. Di-haem_cyt_TM.
IPR006471. Formate_DH_gsu.
[Graphical view]
PfamiPF01292. Ni_hydr_CYTB. 1 hit.
[Graphical view]
SUPFAMiSSF81342. SSF81342. 1 hit.
TIGRFAMsiTIGR01583. formate-DH-gamm. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Analysis of the Escherichia coli genome. III. DNA sequence of the region from 87.2 to 89.2 minutes."
    Plunkett G. III, Burland V., Daniels D.L., Blattner F.R.
    Nucleic Acids Res. 21:3391-3398(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  3. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  4. "Expression and characterization of the Escherichia coli fdo locus and a possible physiological role for aerobic formate dehydrogenase."
    Abaibou H., Pommier J., Giordano G., Mandrand-Berthelot M.-A.
    J. Bacteriol. 177:7141-7149(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION.
    Strain: K12.
  5. "Topological analysis of the aerobic membrane-bound formate dehydrogenase of Escherichia coli."
    Benoit S., Abaibou H., Mandrand-Berthelot M.-A.
    J. Bacteriol. 180:6625-6634(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: TOPOLOGY.
  6. "Global topology analysis of the Escherichia coli inner membrane proteome."
    Daley D.O., Rapp M., Granseth E., Melen K., Drew D., von Heijne G.
    Science 308:1321-1323(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: TOPOLOGY [LARGE SCALE ANALYSIS].
    Strain: K12 / MG1655 / ATCC 47076.

Entry informationi

Entry nameiFDOI_ECOLI
AccessioniPrimary (citable) accession number: P0AEL0
Secondary accession number(s): P32174, Q2M8I9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: December 20, 2005
Last modified: June 8, 2016
This is version 92 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  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.