Cytochrome o ubiquinol oxidase protein CyoD - Escherichia coli (strain K12)

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P0ABJ6 (CYOD_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 67. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Cytochrome o ubiquinol oxidase protein CyoD
Short name=Ubiquinol oxidase chain D

Gene names

Name:	cyoD
Ordered Locus Names:	b0429, JW0419

Organism

Escherichia coli (strain K12) [Reference proteome] [HAMAP]

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia ›

Protein attributes

Sequence length	109 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Cytochrome o terminal oxidase complex is the component of the aerobic respiratory chain of E.coli that predominates when cells are grown at high aeration.
Subunit structure	Heterooctamer of two A chains, two B chains, two C chains and two D chains.
Subcellular location	Cell inner membrane; Multi-pass membrane protein.
Sequence similarities	Belongs to the cytochrome c oxidase bacterial subunit 4 family.
Sequence caution	The sequence AAB40185.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Electron transport Transport
Cellular component	Cell inner membrane Cell membrane Membrane
Domain	Transmembrane Transmembrane helix
Molecular function	Oxidoreductase
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	aerobic electron transport chain Inferred from mutant phenotype PubMed 2981797. Source: EcoCyc electron transport coupled proton transport Inferred from mutant phenotype PubMed 2544445. Source: EcoCyc
Cellular_component	cytochrome o ubiquinol oxidase complex Inferred from direct assay PubMed 6308657. Source: EcoCyc plasma membrane Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	cytochrome bo3 ubiquinol oxidase activity Inferred from direct assay PubMed 1322173. Source: EcoCyc cytochrome o ubiquinol oxidase activity Inferred from electronic annotation. Source: InterPro electron carrier activity Inferred from direct assay PubMed 3301837. Source: EcoCyc hydrogen ion transmembrane transporter activity Inferred from direct assay Ref.7. Source: EcoCyc oxidoreduction-driven active transmembrane transporter activity Inferred from direct assay PubMed 6365921. Source: EcoCyc
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 109

109

Cytochrome o ubiquinol oxidase protein CyoD

PRO_0000183910

Regions

Topological domain

1 – 17

Cytoplasmic Probable

Transmembrane

18 – 36

Helical; Probable

Topological domain

37 – 45

Periplasmic Probable

Transmembrane

46 – 64

Helical; Probable

Topological domain

65 – 80

Cytoplasmic Probable

Transmembrane

81 – 99

Helical; Probable

Topological domain

100 – 109

Periplasmic Probable

Sequences

Sequence

Length

Mass (Da)

Tools

P0ABJ6 [UniParc].

Last modified October 25, 2005. Version 1.
Checksum: E2DBE23C893724BA
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FASTA

109

12,029

        10         20         30         40         50         60 
MSHSTDHSGA SHGSVKTYMT GFILSIILTV IPFWMVMTGA ASPAVILGTI LAMAVVQVLV 

        70         80         90        100 
HLVCFLHMNT KSDEGWNMTA FVFTVLIIAI LVVGSIWIMW NLNYNMMMH

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The sequence of the cyo operon indicates substantial structural similarities between the cytochrome o ubiquinol oxidase of Escherichia coli and the aa3-type family of cytochrome c oxidases." Chepuri V., Lemieux L., Au D.C.T., Gennis R.B. J. Biol. Chem. 265:11185-11192(1990) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Sequence of minutes 4-25 of Escherichia coli." Chung E., Allen E., Araujo R., Aparicio A.M., Davis K., Duncan M., Federspiel N., Hyman R., Kalman S., Komp C., Kurdi O., Lew H., Lin D., Namath A., Oefner P., Roberts D., Schramm S., Davis R.W. Submitted (JAN-1997) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[3]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[4]	"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.
[5]	"The use of gene fusions to determine the topology of all of the subunits of the cytochrome o terminal oxidase complex of Escherichia coli." Chepuri V., Gennis R.B. J. Biol. Chem. 265:12978-12986(1990) [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.
[7]	"The structure of the ubiquinol oxidase from Escherichia coli and its ubiquinone binding site." Abramson J., Riistama S., Larsson G., Jasaitis A., Svensson-Ek M., Puustinen A., Iwata S., Wikstrom M. Nat. Struct. Biol. 7:910-917(2000) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (3.5 ANGSTROMS).

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

J05492 Genomic DNA. Translation: AAA23634.1.
U82664 Genomic DNA. Translation: AAB40185.1. Different initiation.
U00096 Genomic DNA. Translation: AAC73532.1.
AP009048 Genomic DNA. Translation: BAE76209.1.

PIR

D42226.

RefSeq

NP_414963.1. NC_000913.2.
YP_488721.1. NC_007779.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1FFT	X-ray	3.50

ProteinModelPortal

P0ABJ6.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-48238N.

STRING

511145.b0429.

Protein family/group databases

TCDB

3.D.4.5.1. proton-translocating cytochrome oxidase (COX) superfamily.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

AAC73532; AAC73532; b0429.
BAE76209; BAE76209; BAE76209.

GeneID

12931877.
944918.

KEGG

ecj:Y75_p0417.
eco:b0429.

PATRIC

32116009. VBIEscCol129921_0446.

Organism-specific databases

EchoBASE

EB0178.

EcoGene

EG10181. cyoD.

Phylogenomic databases

eggNOG

COG3125.

HOGENOM

HOG000087516.

K02300.

OMA

SLWVMHH.

ProtClustDB

PRK10582.

Enzyme and pathway databases

BioCyc

EcoCyc:CYOD-MONOMER.
ECOL316407:JW0419-MONOMER.
MetaCyc:CYOD-MONOMER.

Gene expression databases

Genevestigator

P0ABJ6.

Family and domain databases

InterPro

IPR005171. Cyt_c_oxidase_suIV_prok.
IPR014210. Cyt_o_ubiqinol_oxidase_su4.
[Graphical view]

Pfam

PF03626. COX4_pro. 1 hit.
[Graphical view]

TIGRFAMs

TIGR02847. CyoD. 1 hit.

ProtoNet

Search...

Other

EvolutionaryTrace

P0ABJ6.

Entry information

Entry name

CYOD_ECOLI

Accession

Primary (citable) accession number: P0ABJ6
Secondary accession number(s): P18403, P77116, Q2MBZ7

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 25, 2005
Last sequence update:	October 25, 2005
Last modified:	May 1, 2013
This is version 67 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

Escherichia coli

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

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protein family/group databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents