Cytochrome d ubiquinol oxidase subunit 1 - Escherichia coli (strain K12)

Contribute

Send feedback

Read comments (?) or add your own

P0ABJ9 (CYDA_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 61. History...

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

Documents (3) |

Third-party data

text xml rdf/xml gff fasta

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

Names and origin

Protein names

Recommended name:
Cytochrome d ubiquinol oxidase subunit 1
EC=1.10.3.-

Alternative name(s):
Cytochrome bd-I oxidase subunit I
Cytochrome d ubiquinol oxidase subunit I

Gene names

Name:	cydA
Synonyms:	cyd-1
Ordered Locus Names:	b0733, JW0722

Organism

Escherichia coli (strain K12)

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia

Protein attributes

Sequence length	522 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Cytochrome d terminal oxidase complex is the component of the aerobic respiratory chain of E.coli that predominates when cells are grown at low aeration.
Catalytic activity	Ubiquinol-8 + O₂ = Ubiquinone-8 + H₂O.
Cofactor	Binds 1 protoheme IX group.
Pathway	Energy metabolism; oxidative phosphorylation.
Subunit structure	Heterodimer of subunits I and II. Has been isolated from inner membrane preparations in a complex with one subunit each of CydB and YhcB, suggesting that YhcB is in fact a subunit of this complex. Ref.8
Subcellular location	Cell inner membrane; Multi-pass membrane protein Ref.8.
Sequence similarities	Belongs to the cytochrome ubiquinol oxidase subunit 1 family.

Ontologies

Keywords
Biological process	Electron transport Transport
Cellular component	Cell inner membrane Cell membrane Membrane
Domain	Transmembrane Transmembrane helix
Ligand	Heme Iron Metal-binding
Molecular function	Oxidoreductase
PTM	Formylation
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	cytochrome complex assembly Inferred from direct assay. Source: EcoCyc electron transport chain Inferred from electronic annotation. Source: UniProtKB-KW transport Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW plasma membrane Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	electron carrier activity Inferred from direct assay. Source: EcoCyc heme binding Inferred from direct assay. Source: EcoCyc oxidoreductase activity, acting on diphenols and related substances as donors Inferred from direct assay. Source: EcoCyc
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 522

522

Cytochrome d ubiquinol oxidase subunit 1

PRO_0000183919

Regions

Topological domain

1 – 22

Cytoplasmic Probable

Transmembrane

23 – 42

Helical; Probable

Topological domain

43 – 94

Periplasmic Probable

Transmembrane

95 – 114

Helical; Probable

Topological domain

115 – 129

Cytoplasmic Probable

Transmembrane

130 – 149

Helical; Probable

Topological domain

150 – 187

Periplasmic Probable

Transmembrane

188 – 207

Helical; Probable

Topological domain

208 – 219

Cytoplasmic Probable

Transmembrane

220 – 239

Helical; Probable

Topological domain

240 – 392

153

Periplasmic Probable

Transmembrane

393 – 412

Helical; Probable

Topological domain

413 – 470

Cytoplasmic Probable

Transmembrane

471 – 490

Helical; Probable

Topological domain

491 – 522

Periplasmic Probable

Sites

Metal binding

186

Iron (heme b558 axial ligand)

Amino acid modifications

Modified residue

N-formylmethionine

Experimental info

Sequence conflict

213

F → L in AAA18804. Ref.1

Sequences

Sequence

Length

Mass (Da)

Tools

P0ABJ9 [UniParc].

Last modified October 25, 2005. Version 1.
Checksum: E757442068BCFCFE
Show »

FASTA

522

58,205

        10         20         30         40         50         60 
MLDIVELSRL QFALTAMYHF LFVPLTLGMA FLLAIMETVY VLSGKQIYKD MTKFWGKLFG 

        70         80         90        100        110        120 
INFALGVATG LTMEFQFGTN WSYYSHYVGD IFGAPLAIEG LMAFFLESTF VGLFFFGWDR 

       130        140        150        160        170        180 
LGKVQHMCVT WLVALGSNLS ALWILVANGW MQNPIASDFN FETMRMEMVS FSELVLNPVA 

       190        200        210        220        230        240 
QVKFVHTVAS GYVTGAMFIL GISAWYMLKG RDFAFAKRSF AIAASFGMAA VLSVIVLGDE 

       250        260        270        280        290        300 
SGYEMGDVQK TKLAAIEAEW ETQPAPAAFT LFGIPDQEEE TNKFAIQIPY ALGIIATRSV 

       310        320        330        340        350        360 
DTPVIGLKEL MVQHEERIRN GMKAYSLLEQ LRSGSTDQAV RDQFNSMKKD LGYGLLLKRY 

       370        380        390        400        410        420 
TPNVADATEA QIQQATKDSI PRVAPLYFAF RIMVACGFLL LAIIALSFWS VIRNRIGEKK 

       430        440        450        460        470        480 
WLLRAALYGI PLPWIAVEAG WFVAEYGRQP WAIGEVLPTA VANSSLTAGD LIFSMVLICG 

       490        500        510        520 
LYTLFLVAEL FLMFKFARLG PSSLKTGRYH FEQSSTTTQP AR

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The nucleotide sequence of the cyd locus encoding the two subunits of the cytochrome d terminal oxidase complex of Escherichia coli." Green G.N., Fang H., Lin R.-J., Newton G., Mather M., Georgiou C.D., Gennis R.B. J. Biol. Chem. 263:13138-13143(1988) [PubMed: 2843510] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"A 718-kb DNA sequence of the Escherichia coli K-12 genome corresponding to the 12.7-28.0 min region on the linkage map." Oshima T., Aiba H., Baba T., Fujita K., Hayashi K., Honjo A., Ikemoto K., Inada T., Itoh T., Kajihara M., Kanai K., Kashimoto K., Kimura S., Kitagawa M., Makino K., Masuda S., Miki T., Mizobuchi K. Horiuchi T. DNA Res. 3:137-155(1996) [PubMed: 8905232] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[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: 9278503] [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: 16738553] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[5]	"Beta-galactosidase gene fusions as probes for the cytoplasmic regions of subunits I and II of the membrane-bound cytochrome d terminal oxidase from Escherichia coli." Georgiou C.D., Dueweke T.J., Gennis R.B. J. Biol. Chem. 263:13130-13137(1988) [PubMed: 3138232] [Abstract] Cited for: TOPOLOGY.
[6]	"Analysis of the topology of the cytochrome d terminal oxidase complex of Escherichia coli by alkaline phosphatase fusions." Newton G., Yun C.H., Gennis R.B. Mol. Microbiol. 5:2511-2518(1991) [PubMed: 1724280] [Abstract] Cited for: TOPOLOGY.
[7]	"Epitopes of monoclonal antibodies which inhibit ubiquinol oxidase activity of Escherichia coli cytochrome d complex localize functional domain." Dueweke T.J., Gennis R.B. J. Biol. Chem. 265:4273-4277(1990) [PubMed: 1689724] [Abstract] Cited for: DOMAINS.
[8]	"Protein complexes of the Escherichia coli cell envelope." Stenberg F., Chovanec P., Maslen S.L., Robinson C.V., Ilag L., von Heijne G., Daley D.O. J. Biol. Chem. 280:34409-34419(2005) [PubMed: 16079137] [Abstract] Cited for: SUBUNIT, SUBCELLULAR LOCATION. Strain: BL21-DE3.
[9]	"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: 15919996] [Abstract] Cited for: TOPOLOGY [LARGE SCALE ANALYSIS]. Strain: K12 / MG1655 / ATCC 47076.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	J03939 Unassigned DNA. Translation: AAA18804.1. U00096 Genomic DNA. Translation: AAC73827.2. AP009048 Genomic DNA. Translation: BAA35399.1.
RefSeq	NP_415261.2. NC_000913.2.
3D structure databases
ProteinModelPortal	P0ABJ9.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-36181N.
IntAct	P0ABJ9. 3 interactions.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	EBESCT00000000023; EBESCP00000000023; EBESCG00000000021. EBESCT00000000024; EBESCP00000000024; EBESCG00000000021. EBESCT00000000025; EBESCP00000000025; EBESCG00000000021. EBESCT00000000026; EBESCP00000000026; EBESCG00000000021. EBESCT00000000027; EBESCP00000000027; EBESCG00000000021. EBESCT00000015660; EBESCP00000014951; EBESCG00000014720.
GeneID	945341.
GenomeReviews	Gene locus JW0722 in contig AP009048_GR. Gene locus b0733 in contig U00096_GR.
KEGG	ecj:JW0722. eco:b0733.
PATRIC	32116663. VBIEscCol129921_0764.
Organism-specific databases
EchoBASE	EB0170.
EcoGene	EG10173. cydA.
Phylogenomic databases
eggNOG	COG1271.
GeneTree	EBGT00050000010528.
HOGENOM	HBG753185.
OMA	MAVTWLV.
PhylomeDB	P0ABJ9.
ProtClustDB	PRK15097.
Enzyme and pathway databases
BioCyc	EcoCyc:CYDA-MONOMER. MetaCyc:CYDA-MONOMER.
Gene expression databases
Genevestigator	P0ABJ9.
Family and domain databases
InterPro	IPR002585. Cyt-d_ubiquinol_oxidase_suI. [Graphical view]
KO	K00425.
Pfam	PF01654. Bac_Ubq_Cox. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

CYDA_ECOLI

Accession

Primary (citable) accession number: P0ABJ9
Secondary accession number(s): P11026, P75754, P76823

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 25, 2005
Last sequence update:	October 25, 2005
Last modified:	January 25, 2012
This is version 61 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

PATHWAY comments

Index of metabolic and biosynthesis pathways

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

Sites

Amino acid modifications

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Entry information

Relevant documents