trxC:On One Page

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

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Standard Name

trxC

Gene Synonym(s)

ECK2580, b2582, JW2566, yfiG[1], yfiG

Product Desc.

thioredoxin 2[2][3]

Thioredoxin 2, zinc-binding; Trx2[4]

Product Synonyms(s)

thioredoxin 2[1], B2582[2][1], YfiG[2][1] , ECK2580, JW2566, yfiG, b2582

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): trxC[2]

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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OxyR regulon. Zinc is not required for reductase activity and may be part of a redox switch.[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

trxC

Mnemonic

Thioredoxin

Synonyms

ECK2580, b2582, JW2566, yfiG[1], yfiG

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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

58.55 minutes 

MG1655: 2716757..2717176
<gbrowseImage> name=NC_000913:2716757..2717176 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2640228..2640647
<gbrowseImage> name=NC_012967:2640228..2640647 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2602562..2602981
<gbrowseImage> name=NC_012759:2602562..2602981 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2717391..2717810
<gbrowseImage> name=NC_007779:2717391..2717810 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2808522..2808941
<gbrowseImage> name=NC_010473:2808522..2808941 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

ΔtrxC (Keio:JW2566)

deletion

deletion

PMID:16738554

Shigen
CGSC10041[5]

ΔtrxC750::kan

PMID:16738554

CGSC:103244


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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

JW2566

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAATACCGTTTGTACCCATTG

Primer 2:CCAAGAGATTCGTTCAGCCAGCT

4A12

Kohara Phage

Genobase

PMID:3038334

3F10

Kohara Phage

Genobase

PMID:3038334

nadB51::Tn10

Linked marker

CAG18480 = CGSC7419[5]

est. P1 cotransduction: 79% [6]

pheA18::Tn10

Linked marker

CAG12158 = CGSC7421[5]

est. P1 cotransduction: 47% [6]

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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:EG11887

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11887

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001817

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947062

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1833

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008501

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

TrxC

Synonyms

thioredoxin 2[1], B2582[2][1], YfiG[2][1] , ECK2580, JW2566, yfiG, b2582

Product description

thioredoxin 2[2][3]

Thioredoxin 2, zinc-binding; Trx2[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:0005737

cytoplasm

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0086

C

Seeded from EcoCyc (v14.0)

complete

GO:0006662

glycerol ether metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005746

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:0008270

zinc ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0862

F

Seeded from EcoCyc (v14.0)

complete

GO:0009055

electron carrier activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005746

F

Seeded from EcoCyc (v14.0)

complete

GO:0015035

protein disulfide oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005746

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

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:0045454

cell redox homeostasis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005746

P

Seeded from EcoCyc (v14.0)

complete

GO:0045454

cell redox homeostasis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006662

P

Seeded from EcoCyc (v14.0)

complete

GO:0045454

cell redox homeostasis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013766

P

Seeded from EcoCyc (v14.0)

complete

GO:0045454

cell redox homeostasis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015467

P

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

GO:0046872

metal ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

F

Seeded from EcoCyc (v14.0)

complete

GO:0047134

protein-disulfide reductase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:1.8.1.8

F

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

murD

PMID:15690043

Experiment(s):EBI-880328

Protein

cmr

PMID:15690043

Experiment(s):EBI-885691

Protein

codA

PMID:15690043

Experiment(s):EBI-885691

Protein

dnaK

PMID:15690043

Experiment(s):EBI-885691

Protein

glgP

PMID:15690043

Experiment(s):EBI-885691

Protein

mglB

PMID:15690043

Experiment(s):EBI-885691

Protein

rpsD

PMID:16606699

Experiment(s):EBI-1143374

Protein

parE

PMID:16606699

Experiment(s):EBI-1143374

Protein

aceE

PMID:16606699

Experiment(s):EBI-1143374

Protein

lpdA

PMID:16606699

Experiment(s):EBI-1143374

Protein

slyD

PMID:16606699

Experiment(s):EBI-1143374

Protein

rplB

PMID:16606699

Experiment(s):EBI-1143374

Protein

aceF

PMID:16606699

Experiment(s):EBI-1143374

Protein

yrfB

PMID:16606699

Experiment(s):EBI-1143374

Protein

hipB

PMID:16606699

Experiment(s):EBI-1143374

Protein

rplD

PMID:16606699

Experiment(s):EBI-1143374

Protein

prs

PMID:16606699

Experiment(s):EBI-1143374

Protein

matC

PMID:16606699

Experiment(s):EBI-1143374

Protein

thiI

PMID:16606699

Experiment(s):EBI-1143374

Protein

glgP

PMID:19402753

LCMS(ID Probability):99.6

Protein

mglB

PMID:19402753

LCMS(ID Probability):99.6

Protein

codA

PMID:19402753

LCMS(ID Probability):99.6

Protein

mdfA

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

cytoplasm

From EcoCyc[3]


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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 

MNTVCTHCQA INRIPDDRIE DAAKCGRCGH DLFDGEVINA TGETLDKLLK DDLPVVIDFW
APWCGPCRNF APIFEDVAQE RSGKVRFVKV NTEAERELSS RFGIRSIPTI MIFKNGQVVD
MLNGAVPKAP FDSWLNESL
Length

139

Mol. Wt

15.554 kDa

pI

4.9 (calculated)

Extinction coefficient

16,500 - 17,250 (calc based on 0 Y, 3 W, and 6 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

36..138

PF00085 Thioredoxin

PMID:19920124

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<motif_map/>

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

Structures

<beststructure> gene=trxC 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:16130507

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947062

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008501

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AGG4

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11887

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11887

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947062

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001817

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1833

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

1704

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

569

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

648

molecules/cell/generation

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

Ribosome Profiling

PMID: 24766808

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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)

trxC

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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_000913:2716737..2716777 source=MG1655 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

</protect>

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

Type Reference Notes

microarray

GEO Profiles:b2582 (EcoliWiki Page)

NCBI GEO profiles for trxC

microarray

GenExpDB:b2582 (EcoliWiki Page)

Summary of data for trxC from multiple microarray studies

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

Resource Name Resource Type Description Source Notes

GFP Fusion

Intergenic region (2716454..2716809) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ08; Well:B3[7]

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Notes

Accessions Related to trxC Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG11887

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1833

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2582

EcoGene

EcoGene:EG11887

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001817

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008501

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

  • ENSAPMP00000012348 (score: 1.000; bootstrap: 60%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000000014 (score: 1.000; bootstrap: 63%)
  • ENSBTAP00000033144 (score: 0.494)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00031142 (score: 1.000; bootstrap: 55%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00007099 (score: 1.000; bootstrap: 56%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000002247 (score: 1.000; bootstrap: 59%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000013204 (score: 1.000; bootstrap: 83%)
  • ENSCINP00000005773 (score: 0.228)
  • ENSCINP00000006356 (score: 0.132)
  • ENSCINP00000008588 (score: 0.079)
  • ENSCINP00000014401 (score: 0.072)
  • ENSCINP00000007213 (score: 0.050)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-040426-1795 (score: 1.000; bootstrap: 62%)
  • ZDB-CDNA-040425-2735 (score: 1.000; bootstrap: 62%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0185040 (score: 1.000; bootstrap: 49%)
  • DDB0186269 (score: 1.000; bootstrap: 50%)
  • DDB0191909 (score: 1.000; bootstrap: 51%)
  • DDB0217531 (score: 0.064)
  • DDB0231409 (score: 0.051)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0034472 (score: 1.000; bootstrap: 59%)
  • FBgn0035334 (score: 0.281)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA17324-PA (score: 1.000; bootstrap: 65%)
  • GA16546-PA (score: 0.174)
  • GA12311-PA (score: 0.140)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000020444 (score: 1.000; bootstrap: 56%)
  • ENSGALP00000020443 (score: 0.118)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000216185 (score: 1.000; bootstrap: 57%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000002728 (score: 1.000; bootstrap: 61%)
  • ENSMMUP00000012107 (score: 0.150)
  • ENSMMUP00000000812 (score: 0.123)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000000995 (score: 1.000; bootstrap: 64%)

From Inparanoid:20070104

Mus musculus

  • MGI:1929468 (score: 1.000; bootstrap: 65%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000020036 (score: 1.000; bootstrap: 56%)
  • ENSPTRP00000039310 (score: 0.068)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000007537 (score: 1.000; bootstrap: 64%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YLR043C (score: 1.000; bootstrap: 80%)
  • YGR209C (score: 0.674)
  • YCR083W (score: 0.217)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPBC5778c (score: 1.000; bootstrap: 65%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000167897 (score: 1.000; bootstrap: 50%)
  • NEWSINFRUP00000137354 (score: 0.339)
  • NEWSINFRUP00000127860 (score: 0.268)
  • NEWSINFRUP00000132913 (score: 0.159)
  • NEWSINFRUP00000138309 (score: 0.142)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00015494001 (score: 1.000; bootstrap: 52%)
  • GSTENP00019677001 (score: 0.221)
  • GSTENP00026385001 (score: 0.154)
  • GSTENP00008020001 (score: 0.153)
  • GSTENP00009837001 (score: 0.114)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000000504 (score: 1.000; bootstrap: 70%)

From Inparanoid:20070104

Shigella flexneri

TRXC

From SHIGELLACYC

E. coli O157

TRXC

From ECOO157CYC

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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

Superfamily (EcoliWiki Page)

SUPERFAMILY:52833

Panther (EcoliWiki Page)

PTHR10438:SF95

Pfam (EcoliWiki Page)

PF00085 Thioredoxin

EcoCyc

EcoCyc:EG11887

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11887

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001817

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1833

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008501

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 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 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).
  7. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

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