cydA:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

CydA

Synonyms

cytochrome d terminal oxidase, subunit I[1], B0733[2][1], CydA[2][1] , ECK0721, JW0722, b0733

Product description

cytochrome bd-I terminal oxidase subunit I[2][3];

Component of cytochrome bd-I terminal oxidase[2][3]

Cytochrome d (bd-I) terminal oxidase subunit I; upregulated in biofilms and microaerobic conditions; aerobically repressed by H-NS; anaerobically repressed by Fnr[4]

EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997

C

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0006810

transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0813

P

Seeded from EcoCyc (v14.0)

complete

GO:0009055

electron carrier activity

PMID:16299377[5]

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002585

C

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

PMID:16858726[6]

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9909

C

Seeded from EcoCyc (v14.0)

complete

GO:0016679

oxidoreductase activity, acting on diphenols and related substances as donors

PMID:6321507[7]

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0017004

cytochrome complex assembly

PMID:2856143[8]

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc (v14.0)

complete

GO:0020037

heme binding

PMID:8516338[9]

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0022900

electron transport chain

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0249

P

Seeded from EcoCyc (v14.0)

complete

GO:0031224

intrinsic to membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002585

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

P

Seeded from EcoCyc (v14.0)

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

Subunits of [[:Category:Complex:cytochrome bd-I terminal oxidase|cytochrome bd-I terminal oxidase]]

could be indirect


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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes

plasma membrane

C-terminus localized in the cytoplasm with 9 predicted transmembrane domains

Daley et al. (2005) [10]


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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MMLDIVELSR LQFALTAMYH FLFVPLTLGM AFLLAIMETV YVLSGKQIYK DMTKFWGKLF
GINFALGVAT GLTMEFQFGT NWSYYSHYVG DIFGAPLAIE GLMAFFLEST FVGLFFFGWD
RLGKVQHMCV TWLVALGSNL SALWILVANG WMQNPIASDF NFETMRMEMV SFSELVLNPV
AQVKFVHTVA SGYVTGAMFI LGISAWYMLK GRDFAFAKRS FAIAASFGMA AVLSVIVLGD
ESGYEMGDVQ KTKLAAIEAE WETQPAPAAF TLFGIPDQEE ETNKFAIQIP YALGIIATRS
VDTPVIGLKE LMVQHEERIR NGMKAYSLLE QLRSGSTDQA VRDQFNSMKK DLGYGLLLKR
YTPNVADATE AQIQQATKDS IPRVAPLYFA FRIMVACGFL LLAIIALSFW SVIRNRIGEK
KWLLRAALYG IPLPWIAVEA GWFVAEYGRQ PWAIGEVLPT AVANSSLTAG DLIFSMVLIC
GLYTLFLVAE LFLMFKFARL GPSSLKTGRY HFEQSSTTTQ PAR
Length

523

Mol. Wt

58.338 kDa

pI

6.8 (calculated)

Extinction coefficient

98,320 - 98,695 (calc based on 18 Y, 13 W, and 3 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

Domain

7..503

PF01654 Bacterial Cytochrome Ubiquinol Oxidase

PMID:19920124[11]

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<motif_map/>

tmhmm.php?gene=cydA&show=pic&.jpg
Click the image to view raw output from TMHMM.

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=cydA taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:90111166

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945341

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002499

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0ABJ9

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10173

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10173

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945341

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000168

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0170

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 1.3 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ Matsumoto, Y et al. (2006) Mass spectrometric analysis of the ubiquinol-binding site in cytochrome bd from Escherichia coli. J. Biol. Chem. 281 1905-12 PubMed
  6. ↑ Lasserre, JP et al. (2006) A complexomic study of Escherichia coli using two-dimensional blue native/SDS polyacrylamide gel electrophoresis. Electrophoresis 27 3306-21 PubMed
  7. ↑ Kita, K et al. (1984) Terminal oxidases of Escherichia coli aerobic respiratory chain. II. Purification and properties of cytochrome b558-d complex from cells grown with limited oxygen and evidence of branched electron-carrying systems. J. Biol. Chem. 259 3375-81 PubMed
  8. ↑ Miller, MJ & Gennis, RB (1986) Purification and reconstitution of the cytochrome d terminal oxidase complex from Escherichia coli. Meth. Enzymol. 126 87-94 PubMed
  9. ↑ Hill, JJ et al. (1993) Spectroscopic evidence for a heme-heme binuclear center in the cytochrome bd ubiquinol oxidase from Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 90 5863-7 PubMed
  10. ↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed
  11. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

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