torA: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

torA

Gene Synonym(s)

ECK0988, b0997, JW0982[1], JW0982

Product Desc.

trimethylamine N-oxide reductase, catalytic subunit[2][3];

Component of trimethylamine N-oxide reductase I[2][3]

Molybdoprotein trimethylamine N-oxide reductase[4]

Product Synonyms(s)

trimethylamine N-oxide (TMAO) reductase I, catalytic subunit[1], B0997[2][1], TorA[2][1] , ECK0988, JW0982, b0997

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): torCAD[2], OP00297, tor

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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Verified Tat substrate: TorA has a Tat/Sec (Class II) 39 aa signal peptide (Tullman-Ercek, 2007).[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

torA

Mnemonic

Trimethylamine oxide reductase

Synonyms

ECK0988, b0997, JW0982[1], JW0982

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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

22.81 minutes 

MG1655: 1058479..1061025
<gbrowseImage> name=NC_000913:1058479..1061025 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1075546..1078092
<gbrowseImage> name=NC_012967:1075546..1078092 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 961447..963993
<gbrowseImage> name=NC_012759:961447..963993 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1059678..1062224
<gbrowseImage> name=NC_007779:1059678..1062224 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1112407..1114953
<gbrowseImage> name=NC_010473:1112407..1114953 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

Coding Start (SO:0000323)

MG1655

1058596

Edman degradation

PMID:8039676


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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

ΔtorA (Keio:JW0982)

deletion

deletion

PMID:16738554

Shigen
CGSC8969[5]

torA::Tn5KAN-2 (FB20082)

Insertion at nt 973 in Minus orientation

PMID:15262929

E. coli Genome Project:FB20082

does not contain pKD46

ΔtorA741::kan

PMID:16738554

CGSC:103176


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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

JW0982

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAACAATAACGATCTCTTTCA

Primer 2:CCTGATTTCACCTGCGACGCGGG

2F1

Kohara Phage

Genobase

PMID:3038334

5A12

Kohara Phage

Genobase

PMID:3038334

zcb-3059::Tn10

Linked marker

CAG12094 = CGSC7358[5]

est. P1 cotransduction: 6% [6]

zcc-282::Tn10

Linked marker

CAG18466 = CGSC7359[5]

est. P1 cotransduction: 88% [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:EG11814

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11814

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001747

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946267

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1761

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003372

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

TorA

Synonyms

trimethylamine N-oxide (TMAO) reductase I, catalytic subunit[1], B0997[2][1], TorA[2][1] , ECK0988, JW0982, b0997

Product description

trimethylamine N-oxide reductase, catalytic subunit[2][3];

Component of trimethylamine N-oxide reductase I[2][3]

Molybdoprotein trimethylamine N-oxide reductase[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:0030288

outer membrane-bounded periplasmic space

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0009055

electron carrier activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006655

F

Seeded from EcoCyc (v14.0)

complete

GO:0009055

electron carrier activity

PMID:11056172

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0009060

aerobic respiration

PMID:17850256

IEP: Inferred from Expression Pattern

P

Seeded from EcoCyc (v14.0)

complete

GO:0009061

anaerobic respiration

PMID:17850256

IEP: Inferred from Expression Pattern

P

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006655

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006656

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006657

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006658

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:0030151

molybdenum ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006657

F

Seeded from EcoCyc (v14.0)

complete

GO:0030151

molybdenum ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011887

F

Seeded from EcoCyc (v14.0)

complete

GO:0030151

molybdenum ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0500

F

Seeded from EcoCyc (v14.0)

complete

GO:0030151

molybdenum ion binding

PMID:18163615

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0042597

periplasmic space

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011887

C

Seeded from EcoCyc (v14.0)

complete

GO:0042597

periplasmic space

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0574

C

Seeded from EcoCyc (v14.0)

complete

GO:0042597

periplasmic space

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0200

C

Seeded from EcoCyc (v14.0)

complete

GO:0042597

periplasmic space

PMID:2512991

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0050626

trimethylamine-N-oxide reductase (cytochrome c) activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011887

F

Seeded from EcoCyc (v14.0)

complete

GO:0050626

trimethylamine-N-oxide reductase (cytochrome c) activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:1.7.2.3

F

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006658

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011887

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

GO:0050626

trimethylamine-N-oxide reductase (cytochrome c) activity

PMID:18522945

IMP: Inferred from Mutant Phenotype

F

complete

GO:0005515

protein binding

PMID:11562502

IPI: Inferred from Physical Interaction

EcoliWiki:torC


F

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 trimethylamine N-oxide reductase I

could be indirect

Protein

yibN

PMID:16606699

Experiment(s):EBI-1138562

Protein

mutT

PMID:16606699

Experiment(s):EBI-1138562

Protein

hns

PMID:16606699

Experiment(s):EBI-1138562

Protein

yghW

PMID:16606699

Experiment(s):EBI-1138562

Protein

napA

PMID:16606699

Experiment(s):EBI-1138562

Protein

tatE

PMID:16606699

Experiment(s):EBI-1138562

Protein

groL

PMID:16606699

Experiment(s):EBI-1138562

Protein

ybfO

PMID:16606699

Experiment(s):EBI-1138562

Protein

metL

PMID:16606699

Experiment(s):EBI-1138562
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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

periplasm

Periplasm

PMID:15073303

EchoLocation:torA


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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 

MNNNDLFQAS RRRFLAQLGG LTVAGMLGPS LLTPRRATAA QAATDAVISK EGILTGSHWG
AIRATVKDGR FVAAKPFELD KYPSKMIAGL PDHVHNAARI RYPMVRVDWL RKRHLSDTSQ
RGDNRFVRVS WDEALDMFYE ELERVQKTHG PSALLTASGW QSTGMFHNAS GMLAKAIALH
GNSVGTGGDY STGAAQVILP RVVGSMEVYE QQTSWPLVLQ NSKTIVLWGS DLLKNQQANW
WCPDHDVYEY YAQLKAKVAA GEIEVISIDP VVTSTHEYLG REHVKHIAVN PQTDVPLQLA
LAHTLYSENL YDKNFLANYC VGFEQFLPYL LGEKDGQPKD AAWAEKLTGI DAETIRGLAR
QMAANRTQII AGWCVQRMQH GEQWAWMIVV LAAMLGQIGL PGGGFGFGWH YNGAGTPGRK
GVILSGFSGS TSIPPVHDNS DYKGYSSTIP IARFIDAILE PGKVINWNGK SVKLPPLKMC
IFAGTNPFHR HQQINRIIEG LRKLETVIAI DNQWTSTCRF ADIVLPATTQ FERNDLDQYG
NHSNRGIIAM KQVVPPQFEA RNDFDIFREL CRRFNREEAF TEGLDEMGWL KRIWQEGVQQ
GKGRGVHLPA FDDFWNNKEY VEFDHPQMFV RHQAFREDPD LEPLGTPSGL IEIYSKTIAD
MNYDDCQGHP MWFEKIERSH GGPGSQKYPL HLQSVHPDFR LHSQLCESET LRQQYTVAGK
EPVFINPQDA SARGIRNGDV VRVFNARGQV LAGAVVSDRY APGVARIHEG AWYDPDKGGE
PGALCKYGNP NVLTIDIGTS QLAQATSAHT TLVEIEKYNG TVEQVTAFNG PVEMVAQCEY
VPASQVKS
Length

848

Mol. Wt

94.455 kDa

pI

6.8 (calculated)

Extinction coefficient

150,230 - 151,480 (calc based on 27 Y, 20 W, and 10 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

motif

1-39

UniProt Manual:Signal Peptides

UniProt:P33225

Domain

99..573

PF00384 Molybdopterin oxidoreductase

PMID:19920124

Domain

690..812

PF01568 Molydopterin dinucleotide binding domain

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=torA 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:16128963

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946267

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003372

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P33225

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11814

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11814

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946267

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001747

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1761

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

0.811+/-0.273

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.001767478

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

2a

molecules/cell/generation

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

Ribosome Profiling

Low confidence in the sequencing data set.

PMID: 24766808

Protein

E. coli K-12 MG1655

3

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

0a

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

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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)

torCAD

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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_000913:1058459..1058499 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

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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
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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:b0997 (EcoliWiki Page)

NCBI GEO profiles for torA

microarray

GenExpDB:b0997 (EcoliWiki Page)

Summary of data for torA 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
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Notes

Accessions Related to torA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG11814

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1761

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0997

EcoGene

EcoGene:EG11814

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001747

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003372

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

Organism Homologs (Statistics) Comments
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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

Pfam (EcoliWiki Page)

PF01568 Molydopterin dinucleotide binding domain

Pfam (EcoliWiki Page)

PF00384 Molybdopterin oxidoreductase

Superfamily (EcoliWiki Page)

SUPERFAMILY:50692

Superfamily (EcoliWiki Page)

SUPERFAMILY:53706

EcoCyc

EcoCyc:EG11814

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11814

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001747

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1761

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003372

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 1.9 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 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).

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