cyoC:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

Quickview

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Standard Name

cyoC

Gene Synonym(s)

ECK0424, b0430, JW0420[1], JW0420

Product Desc.

cytochrome bo terminal oxidase subunit III[2][3];

Component of [[:Category:Complex:cytochrome bo terminal oxidase|cytochrome bo terminal oxidase]][2][3]

Cytochrome o oxidase subunit III; cytochrome bo(3) ubiquinol oxidase subunit III[4]

Product Synonyms(s)

cytochrome o ubiquinol oxidase subunit III[1], B0430[2][1], CyoC[2][1] , ECK0424, JW0420, b0430

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): cyoABCDE[2], OP00141

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

cyoC

Mnemonic

Cytochrome o oxidase

Synonyms

ECK0424, b0430, JW0420[1], JW0420

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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

9.64 minutes 

MG1655: 447884..447270
<gbrowseImage> name=NC_000913:447270..447884 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 419363..418749
<gbrowseImage> name=NC_012967:418749..419363 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 350029..350643
<gbrowseImage> name=NC_012759:350029..350643 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 447884..447270
<gbrowseImage> name=NC_007779:447270..447884 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 387215..386601
<gbrowseImage> name=NC_010473:386601..387215 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

cyoC(del) (Keio:JW0420)

deletion

deletion

PMID:16738554

Shigen

CGSC8584[5]

cyoC::Tn5KAN-2 (FB20171)

Insertion at nt 544 in Minus orientation

PMID:15262929

E. coli Genome Project:FB20171

does not contain pKD46

cyoC(del)::kan

deletion

Biolog:respiration

unable to respire L-Alanine

PMID:16095938

cyoC787(del)::kan

PMID:16738554

CGSC:100476


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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes

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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW0420

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGCAACTGATACTTTGACGCA

Primer 2:CCCATCGCCCCCATCAGATAAAC

2H5

Kohara Phage

Genobase

PMID:3038334

tsx-247::Tn10

Linked marker

CAG12148 = CGSC7337[5]

est. P1 cotransduction: 57% [6]

zaj-3054::Tn10

Linked marker

CAG12017 = CGSC7339[5]

est. P1 cotransduction: 66% [6]
Synonyms:zba-3054::Tn10

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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

EcoCyc

EcoCyc:EG10180

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10180

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000175

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946897

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0177

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001491

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Product(s)

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Nomenclature

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

Standard name

CyoC

Synonyms

cytochrome o ubiquinol oxidase subunit III[1], B0430[2][1], CyoC[2][1] , ECK0424, JW0420, b0430

Product description

cytochrome bo terminal oxidase subunit III[2][3];

Component of [[:Category:Complex:cytochrome bo terminal oxidase|cytochrome bo terminal oxidase]][2][3]

Cytochrome o oxidase subunit III; cytochrome bo(3) ubiquinol oxidase subunit III[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:0004129

cytochrome-c oxidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000298

F

Seeded from EcoCyc (v14.0)

complete

GO:0004129

cytochrome-c oxidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013833

F

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR014206

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-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:0006123

mitochondrial electron transport, cytochrome c to oxygen

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000298

P

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:3301837

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0009060

aerobic respiration

PMID:2981797

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc (v14.0)

complete

GO:0009486

cytochrome bo3 ubiquinol oxidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012141

F

Seeded from EcoCyc (v14.0)

complete

GO:0009486

cytochrome bo3 ubiquinol oxidase activity

PMID:1322173

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0015453

oxidoreduction-driven active transmembrane transporter activity

PMID:7961841

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:IPR000298

C

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013833

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: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: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:0022904

respiratory electron transport chain

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013833

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR014206

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

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 bo terminal oxidase|cytochrome bo terminal oxidase]]

could be indirect

Protein

groS

PMID:19402753

LCMS(ID Probability):99.6

Protein

hupA

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplI

PMID:19402753

LCMS(ID Probability):99.6

Protein

yfiD

PMID:19402753

LCMS(ID Probability):99.6

Protein

acpP

PMID:19402753

LCMS(ID Probability):99.6

Protein

fimA

PMID:19402753

LCMS(ID Probability):99.6

Protein

yccJ

PMID:19402753

LCMS(ID Probability):99.6

Protein

hdeA

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsJ

PMID:19402753

LCMS(ID Probability):99.6

Protein

dps

PMID:19402753

LCMS(ID Probability):99.6

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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 to the periplasm with 5 predicted transmembrane domains

Daley et al. (2005) [7]


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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

MATDTLTHAT AHAHEHGHHD AGGTKIFGFW IYLMSDCILF SILFATYAVL VNGTAGGPTG
KDIFELPFVL VETFLLLFSS ITYGMAAIAM YKNNKSQVIS WLALTWLFGA GFIGMEIYEF
HHLIVNGMGP DRSGFLSAFF ALVGTHGLHV TSGLIWMAVL MVQIARRGLT STNRTRIMCL
SLFWHFLDVV WICVFTVVYL MGAM
Length

204

Mol. Wt

22.622 kDa

pI

7.1 (calculated)

Extinction coefficient

41,940 - 42,315 (calc based on 6 Y, 6 W, and 3 C residues)


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

4..203

PF00510 Cytochrome c oxidase subunit III

PMID:19920124

<motif_map/>

tmhmm.php?gene=cyoC&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=cyoC 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:16128415

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946897

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001491

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0ABJ3

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10180

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10180

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946897

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000175

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0177

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

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See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

Ecoli K-12

46.768+/-0.432

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.417752443

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 MG1655

14872

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

2749

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

5041

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Notes

Transcription and Transcriptional Regulation

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<protect>

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

Transcription unit(s)

cyoABCDE

Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:447864..447904 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference


Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b0430 (EcoliWiki Page)

NCBI GEO profiles for cyoC

microarray

GenExpDB:b0430 (EcoliWiki Page)

Summary of data for cyoC from multiple microarray studies


Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes

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Notes

Accessions Related to cyoC Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10180

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0177

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0430

EcoGene

EcoGene:EG10180

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000175

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001491

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Evolution

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Homologs in Other Organisms

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

Organism Homologs (Statistics) Comments

Apis mellifera

  • ENSAPMP00000034166 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT2G07687 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00010962 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-011205-16 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0201585 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000028435 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000354982 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:102502 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • P15953 (score: 1.000; bootstrap: 100%)
  • Q9G721 (score: 0.994)
  • Q8HCR6 (score: 0.930)
  • Q6R9A2 (score: 0.924)
  • P14852 (score: 0.924)
  • Q36952 (score: 0.920)
  • Q8HNK2 (score: 0.916)
  • P09138 (score: 0.910)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000051326 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • Q0275 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPMIT4 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

CYOC

From SHIGELLACYC

E. coli O157

CYOC

From ECOO157CYC


Do-It-Yourself Web Tools

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Notes

Families

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

Database Accession Notes

Pfam (EcoliWiki Page)

PF00510 Cytochrome c oxidase subunit III

Panther (EcoliWiki Page)

PTHR11403:SF0

Superfamily (EcoliWiki Page)

SUPERFAMILY:81452

EcoCyc

EcoCyc:EG10180

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10180

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000175

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0177

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001491

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 1.4 1.5 1.6 1.7 1.8 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 2.4 2.5 2.6 2.7 2.8 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. 3.0 3.1 3.2 3.3 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. 4.0 4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. 6.0 6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
  7. Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed

Categories

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