ccmG: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

ccmG

Gene Synonym(s)

ECK2187, b2195, JW2183, dsbE, yejQ[1], yejQ

Product Desc.

thioredoxin-like protein, cytochrome c biogenesis[2][3];

Component of [[:Category:Complex:CcmABCDEFGH cytochrome c biogenesis system|CcmABCDEFGH cytochrome c biogenesis system]][3]

Thiol-disulfide interchange protein, cytochrome C biogenesis; membrane-anchored, periplasmic; thioredoxin homolog[4]

Product Synonyms(s)

periplasmic thioredoxin of cytochrome c-type biogenesis[1], B2195[2][1], YejQ[2][1], CcmG[2][1], DsbE[2][1] , dsbE, ECK2187, JW2183, yejQ, b2195

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ccmABCDEFGH[2], napFDAGHBC-ccmABCDEFGH[2], aeg-46.5

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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CcmG (dsbE) is located in periplasm, anchored to membrane.[4]



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

ccmG

Mnemonic

Cytochrome c maturation

Synonyms

ECK2187, b2195, JW2183, dsbE, yejQ[1], yejQ

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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

49.37 minutes 

MG1655: 2290986..2290429
<gbrowseImage> name=NC_000913:2290429..2290986 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2242953..2242396
<gbrowseImage> name=NC_012967:2242396..2242953 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2176234..2176791
<gbrowseImage> name=NC_012759:2176234..2176791 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2296298..2295741
<gbrowseImage> name=NC_007779:2295741..2296298 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2381974..2381417
<gbrowseImage> name=NC_010473:2381417..2381974 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

ccmG(del) (Keio:JW2183)

deletion

deletion

PMID:16738554

Shigen
CGSC9765[5]

dsbE::Tn5KAN-2 (FB20683)

Insertion at nt 320 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20683

contains pKD46

dsbEC80S

C80S

Drastic decrease in activity

seeded from UniProt:P0AA86

dsbEC83S

C83S

Drastic decrease in activity

seeded from UniProt:P0AA86

ccmG748(del)::kan

PMID:16738554

CGSC:100264

ccmABCDEFG(del)

deletion

Protien Accumulation

Loss of heme-containing membrane proteins

PMID:7635817

See figure 3 for experimental results.

ccmABCDEFG(del)

deletion

Cytochrome accumulation

Loss of cytochromec550

PMID:7635817

See figure 4 for experimental results.

ccmABCDEFG(del)

deletion

Cytochrome biogenesis

Loss of cytochromec550

PMID:7635817

See figure 5 for experimental results.

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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

JW2183

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAGCGCAAAGTATTGTTAAT

Primer 2:CCTTGTGCGGCCTCCTTACTGTA

20F6

Kohara Phage

Genobase

PMID:3038334

19D1

Kohara Phage

Genobase

PMID:3038334

zbd-3104::Tn10

Linked marker

CAG12021 = CGSC7344[5]

est. P1 cotransduction: % [6]
Synonyms:zbc-3105::Tn10, zbd-3105::Tn10

napA722::Tn10

Linked marker

CAG12098 = CGSC7400[5]

est. P1 cotransduction: 69% [6]
Synonyms:zeg-722, zei-722::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:EG12053

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12053

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001966

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:949073

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1984

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007264

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

CcmG

Synonyms

periplasmic thioredoxin of cytochrome c-type biogenesis[1], B2195[2][1], YejQ[2][1], CcmG[2][1], DsbE[2][1] , dsbE, ECK2187, JW2183, yejQ, b2195

Product description

thioredoxin-like protein, cytochrome c biogenesis[2][3];

Component of [[:Category:Complex:CcmABCDEFGH cytochrome c biogenesis system|CcmABCDEFGH cytochrome c biogenesis system]][3]

Thiol-disulfide interchange protein, cytochrome C biogenesis; membrane-anchored, periplasmic; thioredoxin homolog[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:0015036

disulfide oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004799

F

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:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013740

F

Seeded from EcoCyc (v14.0)

complete

GO:0017004

cytochrome complex assembly

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004799

P

Seeded from EcoCyc (v14.0)

complete

GO:0017004

cytochrome complex assembly

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0201

P

Seeded from EcoCyc (v14.0)

complete

GO:0030288

outer membrane-bounded periplasmic space

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004799

C

Seeded from EcoCyc (v14.0)

complete

GO:0045454

cell redox homeostasis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017936

P

Seeded from EcoCyc (v14.0)

complete

GO:0045454

cell redox homeostasis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017937

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:CcmABCDEFGH cytochrome c biogenesis system|CcmABCDEFGH cytochrome c biogenesis system]]

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

Inner membrane

PMID:9537397

EchoLocation:ccmG

N-terminal membrane anchor

plasma membrane


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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

MKRKVLLIPL IIFLAIAAAL LWQLARNAEG DDPTNLESAL IGKPVPKFRL ESLDNPGQFY
QADVLTQGKP VLLNVWATWC PTCRAEHQYL NQLSAQGIRV VGMNYKDDRQ KAISWLKELG
NPYALSLFDG DGMLGLDLGV YGAPETFLID GNGIIRYRHA GDLNPRVWEE EIKPLWEKYS
KEAAQ
Length

185

Mol. Wt

20.809 kDa

pI

5.8 (calculated)

Extinction coefficient

43,430 - 43,680 (calc based on 7 Y, 6 W, and 2 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

40..173

PF08534 Redoxin

PMID:19920124

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

Structures

<beststructure> gene=ccmG 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:16130132

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:949073

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007264

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AA86

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG12053

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12053

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:949073

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001966

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1984

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

E. coli K-12 MG1655

73

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

27

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

20a

molecules/cell/generation

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

Ribosome Profiling

Low confidence in the sequencing data set.

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)

ccmABCDEFGH

napFDAGHBC-ccmABCDEFGH

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_000913:2290966..2291006 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:b2195 (EcoliWiki Page)

NCBI GEO profiles for ccmG

microarray

GenExpDB:b2195 (EcoliWiki Page)

Summary of data for ccmG 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 ccmG Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG12053

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1984

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2195

EcoGene

EcoGene:EG12053

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001966

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007264

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

Shigella flexneri

DSBE

From SHIGELLACYC

E. coli O157

DSBE

From ECOO157CYC

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Notes

Families

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<protect> See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.

Database Accession Notes

Pfam (EcoliWiki Page)

PF08534 Redoxin


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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. 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 2.11 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 4.2 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).

Categories

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