trg: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

trg

Gene Synonym(s)

ECK1415, b1421, JW1417[1], JW1417

Product Desc.

Trg[2][3];

Component of MCP-III[2][3]

Ribose, galactose chemoreceptor, methyl-accepting; MCP III; flagellar regulon[4]

Product Synonyms(s)

methyl-accepting chemotaxis protein III, ribose and galactose sensor receptor[1], B1421[2][1], Trg[2][1] , ECK1415, JW1417, b1421

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): trg[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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Trg senses ribose and galactose indirectly through their periplasmic binding proteins. Trg is a low-abundance chemoreceptor, 5- 10-fold lower than Tar and Tsr. Trg can function as a warm receptor during thermotaxis. Trg senses low pH as an attractant and phenol as a repellent.[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

trg

Mnemonic

Taxis to ribose and galactose

Synonyms

ECK1415, b1421, JW1417[1], JW1417

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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

32.12 minutes 

MG1655: 1490494..1492134
<gbrowseImage> name=NC_000913:1490494..1492134 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1462579..1464219
<gbrowseImage> name=NC_012967:1462579..1464219 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1382553..1384193
<gbrowseImage> name=NC_012759:1382553..1384193 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1494184..1495824
<gbrowseImage> name=NC_007779:1494184..1495824 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1581089..1582729
<gbrowseImage> name=NC_010473:1581089..1582729 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

Δtrg (Keio:JW1417)

deletion

deletion

PMID:16738554

Shigen
CGSC9242[5]

trg::Tn5KAN-2 (FB20316)

Insertion at nt 509 in Minus orientation

PMID:15262929

E. coli Genome Project:FB20316

contains pKD46

trg::Tn5KAN-2 (FB20317)

Insertion at nt 509 in Minus orientation

PMID:15262929

E. coli Genome Project:FB20317

does not contain pKD46

trg-2::Tn10

Insertion at 1,491,930 bp in MG1655 (NC_000913)

adapted from Nichols et al.[6]

CAG12026 = CGSC7376[5]

Synonyms:

trg-1::Tn5

CGSC:9685

trg-2::Tn10

PMID:2540407

CGSC:10754

trg-3120::Tn10kan

PMID:2540407

CGSC:39820

Δtrg-782::kan

PMID:16738554

CGSC:103208


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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

JW1417

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAATACAACTCCCTCACAGCG

Primer 2:CCaACCGTAGCGAAACTAACTGG

24D6

Kohara Phage

Genobase

PMID:3038334

1A6

Kohara Phage

Genobase

PMID:3038334

zhj-3076::Tn10

Linked marker

CAG18640 = CGSC7453[5]

est. P1 cotransduction: 6% [6]

zdd-235::Tn10

Linked marker

CAG18461 = CGSC7378[5]

est. P1 cotransduction: 13% [6]
Synonyms:zdc-235::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:EG11018

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11018

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001007

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945995

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1011

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004744

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

Trg

Synonyms

methyl-accepting chemotaxis protein III, ribose and galactose sensor receptor[1], B1421[2][1], Trg[2][1] , ECK1415, JW1417, b1421

Product description

Trg[2][3];

Component of MCP-III[2][3]

Ribose, galactose chemoreceptor, methyl-accepting; MCP III; flagellar regulon[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:0004871

signal transducer activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003660

F

Seeded from EcoCyc (v14.0)

complete

GO:0004871

signal transducer activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004089

F

Seeded from EcoCyc (v14.0)

complete

GO:0004871

signal transducer activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004090

F

Seeded from EcoCyc (v14.0)

complete

GO:0004871

signal transducer activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004091

F

Seeded from EcoCyc (v14.0)

complete

GO:0004871

signal transducer activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0807

F

Seeded from EcoCyc (v14.0)

complete

GO:0004888

transmembrane receptor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003122

F

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:0006935

chemotaxis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003122

P

Seeded from EcoCyc (v14.0)

complete

GO:0006935

chemotaxis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004089

P

Seeded from EcoCyc (v14.0)

complete

GO:0006935

chemotaxis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004090

P

Seeded from EcoCyc (v14.0)

complete

GO:0006935

chemotaxis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004091

P

Seeded from EcoCyc (v14.0)

complete

GO:0006935

chemotaxis

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0145

P

Seeded from EcoCyc (v14.0)

complete

GO:0007165

signal transduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003122

P

Seeded from EcoCyc (v14.0)

complete

GO:0007165

signal transduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003660

P

Seeded from EcoCyc (v14.0)

complete

GO:0007165

signal transduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004089

P

Seeded from EcoCyc (v14.0)

complete

GO:0007165

signal transduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004090

P

Seeded from EcoCyc (v14.0)

complete

GO:0007165

signal transduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004091

P

Seeded from EcoCyc (v14.0)

complete

GO:0007165

signal transduction

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0807

P

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003122

C

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004089

C

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004090

C

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004091

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:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003660

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

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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 MCP-III

could be indirect

Protein

prs

PMID:16606699

Experiment(s):EBI-1139804

Protein

sdhA

PMID:16606699

Experiment(s):EBI-1139804

Protein

pheA

PMID:16606699

Experiment(s):EBI-1139804
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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 in the cytoplasm with 2 predicted transmembrane domains

Daley et al. (2005) [7]

plasma membrane

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 

MNTTPSQRLG FLHHIRLVPL FACILGGILV LFALSSALAG YFLWQADRDQ RDVTAEIEIR
TGLANSSDFL RSARINMIQA GAASRIAEME AMKRNIAQAE SEIKQSQQGY RAYQNRPVKT
PADEALDTEL NQRFQAYITG MQPMLKYAKN GMFEAIINHE SEQIRPLDNA YTDILNKAVK
IRSTRANQLA ELAHQRTRLG GMFMIGAFVL ALVMTLITFM VLRRIVIRPL QHAAQRIEKI
ASGDLTMNDE PAGRNEIGRL SRHLQQMQHS LGMTVGTVRQ GAEEIYRGTS EISAGNADLS
SRTEEQAAAI EQTAASMEQL TATVKQNADN AHHASKLAQE ASIKASDGGQ TVSGVVKTMG
AISTSSKKIS EITAVINSIA FQTNILALNA AVEAARAGEQ GRGFAVVASE VRTLASRSAQ
AAKEIEGLIS ESVRLIDLGS DEVATAGKTM STIVDAVASV THIMQEIAAA SDEQSRGITQ
VSQAISEMDK VTQQNASLVE EASAAAVSLE EQAARLTEAV DVFRLHKHSV SAEPRGAGEP
VSFATV
Length

546

Mol. Wt

58.898 kDa

pI

6.5 (calculated)

Extinction coefficient

15,930 - 16,055 (calc based on 7 Y, 1 W, and 1 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

204..273

PF00672 HAMP domain

PMID:19920124

Domain

331..526

PF00015 Methyl-accepting chemotaxis protein (MCP) signaling domain

PMID:19920124

Domain

47..185

PF02203 Tar ligand binding domain homologue

PMID:19920124

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<motif_map/>

tmhmm.php?gene=trg&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=trg 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:16129380

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945995

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004744

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P05704

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11018

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11018

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945995

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001007

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1011

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

1a

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

1a

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

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)

trg

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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_000913:1490474..1490514 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:b1421 (EcoliWiki Page)

NCBI GEO profiles for trg

microarray

GenExpDB:b1421 (EcoliWiki Page)

Summary of data for trg 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 trg Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG11018

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1011

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1421

EcoGene

EcoGene:EG11018

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001007

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004744

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

Anopheles gambiae

  • ENSANGP00000025965 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000015274 (score: 1.000; bootstrap: 51%)
  • ENSXETP00000018487 (score: 1.000; bootstrap: 51%)

From Inparanoid:20070104

Shigella flexneri

TRG

From SHIGELLACYC

E. coli O157

TRG

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

Pfam (EcoliWiki Page)

PF00672 HAMP domain

Pfam (EcoliWiki Page)

PF00015 Methyl-accepting chemotaxis protein (MCP) signaling domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:47170

Superfamily (EcoliWiki Page)

SUPERFAMILY:58104

Pfam (EcoliWiki Page)

PF02203 Tar ligand binding domain homologue

EcoCyc

EcoCyc:EG11018

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11018

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001007

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1011

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004744

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 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 3.4 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 5.3 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 6.2 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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