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Expression|

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Standard Name	torC
Gene Synonym(s)	ECK0987, b0996, JW0981^[1], JW0981
Product Desc.	trimethylamine N-oxide reductase, cytochrome c-type subunit^[2]; TorC trimethylamine N-oxide reductase, cytochrome c-type subunit^[3]; Component of trimethylamine N-oxide reductase I^[2]^[3] c-Type cytochrome^[4]
Product Synonyms(s)	trimethylamine N-oxide (TMAO) reductase I, cytochrome c-type subunit^[1], B0996^[2]^[1], TorC^[2]^[1] , ECK0987, JW0981, b0996
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): torCAD^[2], OP00297, tor
Regulation/Activity
Quick Links
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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	torC
Mnemonic	Trimethylamine oxide reductase
Synonyms	ECK0987, b0996, JW0981^[1], JW0981
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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	22.79 minutes	MG1655: 1057307..1058479 <gbrowseImage> name=NC_000913:1057307..1058479 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 1074374..1075546 <gbrowseImage> name=NC_012967:1074374..1075546 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 960275..961447 <gbrowseImage> name=NC_012759:960275..961447 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 1058506..1059678 <gbrowseImage> name=NC_007779:1058506..1059678 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 1111235..1112407 <gbrowseImage> name=NC_010473:1111235..1112407 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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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: Description	Reference	Availability	Comments
ΔtorC (Keio:JW0981)	deletion	deletion		PMID:16738554	Shigen CGSC8968^[5]
torCC329S		C329S	Decrease in expression of the torCAD operon			seeded from UniProt:P33226
ΔtorC740::kan				PMID:16738554	CGSC:103178
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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
JW0981	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCCGGAAACTCTGGAACGCGCT Primer 2:CCTTTTTCTTCCTTCTTATCGCC
2F1	Kohara Phage	Genobase	PMID:3038334
5A12	Kohara Phage	Genobase	PMID:3038334
zcb-3059::Tn10	Linked marker	CAG12094 = CGSC7358^[5]	est. P1 cotransduction: 7% ^[6]
zcc-282::Tn10	Linked marker	CAG18466 = CGSC7359^[5]	est. P1 cotransduction: 84% ^[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:EG11815	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11815	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001748	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946252	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1762	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003370	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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	TorC
Synonyms	trimethylamine N-oxide (TMAO) reductase I, cytochrome c-type subunit^[1], B0996^[2]^[1], TorC^[2]^[1] , ECK0987, JW0981, b0996
Product description	trimethylamine N-oxide reductase, cytochrome c-type subunit^[2]; TorC trimethylamine N-oxide reductase, cytochrome c-type subunit^[3]; Component of trimethylamine N-oxide reductase I^[2]^[3] c-Type cytochrome^[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:0005506	iron ion binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR009154	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005506	iron ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0408	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005506	iron ion binding	PMID:11562502	ISS: Inferred from Sequence or Structural Similarity		F	Seeded from EcoCyc (v14.0)	Missing: with/from
	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	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR009154	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:0009276	Gram-negative-bacterium-type cell wall	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR009154	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR009154	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-9906	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	PMID:8022286	IDA: Inferred from Direct Assay		C	Seeded from EcoCyc (v14.0)	complete
	GO:0020037	heme binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR009154	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: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: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:0005515	protein binding	PMID:11562502	IPI: Inferred from Physical Interaction	EcoliWiki:torS	F		complete
	GO:0005515	protein binding	PMID:11562502	IPI: Inferred from Physical Interaction	EcoliWiki:torA	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
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Notes

Localization

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

Compartment	Evidence	Reference/Source	Notes
plasma membrane		From EcoCyc^[3]
Inner membrane	PMID:11056172	EchoLocation:torC	N-terminal membrane anchor
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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 MRKLWNALRR PSARWSVLAL VAIGIVIGIA LIVLPHVGIK VTSTTEFCVS CHSMQPVYEE YKQSVHFQNA SGVRAECHDC HIPPDIPGMV KRKLEASNDI YQTFIAHSID TPEKFEAKRA ELAEREWARM KENNSATCRS CHNYDAMDHA KQHPEAARQM KVAAKDNQSC IDCHKGIAHQ LPDMSSGFRK QFDELRASAN DSGDTLYSID IKPIYAAKGD KEASGSLLPA SEVKVLKRDG DWLQIEITGW TESAGRQRVL TQFPGKRIFV ASIRGDVQQQ VKTLEKTTVA DTNTEWSKLQ ATAWMKKGDM VNDIKPIWAY ADSLYNGTCN QCHGAPEIAH FDANGWIGTL NGMIGFTSLD KREERTLLKY LQMNASDTAG KAHGDKKEEK
Length	390
Mol. Wt	43.606 kDa
pI	8.0 (calculated)
Extinction coefficient	62,910 - 64,160 (calc based on 9 Y, 9 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
Domain	10..184	PF03264 NapC/NirT cytochrome c family, N-terminal region		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=torC 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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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:16128962	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946252	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003370	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P33226	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11815	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11815	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946252	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001748	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1762	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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 MC4100	1.47E+02	molecules/cell	Medium: median data from rich and minimal media Temperature (°C): 37 Doubling time (min): Growth Rate(min): Growth phase: other:	emPAI		PMID:18304323
Protein	E. coli K-12 MG1655	0^a	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	1^a	molecules/cell/generation	Medium: MOPS Minimal 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	0^a	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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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_000913:1057287..1057327 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:b0996 (EcoliWiki Page)	NCBI GEO profiles for torC
microarray	GenExpDB:b0996 (EcoliWiki Page)	Summary of data for torC 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 torC Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11815	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1762	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0996
EcoGene	EcoGene:EG11815	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001748	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003370	Escherichia coli str. K-12 substr. MG1655
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Notes

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Name	URL	Comments
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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	TORC	From SHIGELLACYC
E. coli O157	TORC	From ECOO157CYC
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Do-It-Yourself Web Tools

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)	PF03264 NapC/NirT cytochrome c family, N-terminal region
Superfamily (EcoliWiki Page)	SUPERFAMILY:48695
EcoCyc	EcoCyc:EG11815	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11815	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001748	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1762	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003370	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^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
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 ^5.2 CGSC: The Coli Genetics Stock Center
↑ ^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).

torC:On One Page

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Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to torC Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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