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Quickview | Gene | Product(s) | Expression| Evolution | References |

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See Help:Quickview for help with entering information in the Quickview table.

Standard Name

tsx

Gene Synonym(s)

ECK0405, b0411, JW0401, T6rec, nupA[1]

Product Desc.

nucleoside channel; receptor of phage T6 and colicin K[2][3]

Outer membrane channel for nucleosides; receptor for phage T6 and colicin K[4]

Product Synonyms(s)

nucleoside channel, receptor of phage T6 and colicin K[1], B0411[2][1], NupA[2][1], Tsx[2][1]

Function from GO
Knock-Out Phenotype
Regulation/Expression

transcription unit(s): tsx[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(tsx)    Textpresso(tsx)

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See Help:Quickview for help with entering information in the Quickview table.

Notes

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First 22 aa are predicted to be a type I signal peptide. The antibiotic albicidin enters via the Tsx channel.[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

tsx

Mnemonic

T-six

Synonyms

ECK0405, b0411, JW0401, T6rec, nupA[1]

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Notes

Location(s) and DNA Sequence

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

9.28 minutes 

MG1655: 431237..430353
gbrowse_img.php?coord=430353..431237&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 400435..399662
gbrowse_img.php?coord=399662..400435&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 431237..430353
gbrowse_img.php?coord=430353..431237&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 370568..369684
gbrowse_img.php?coord=369684..370568&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 333112..333996
gbrowse_img.php?coord=333112..333996&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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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 typeLocationDescription
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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.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments

Δtsx (Keio:JW0401)

deletion

deletion

PMID:16738554

Shigen
CGSC8574[5]

tsxN276Y

N276Y

(in phage resistant mutant)

Strain variation; seeded from UniProt:P0A927

tsx-247::Tn10

Insertion at 430,667 bp in MG1655 (NC_000913)

adapted from Nichols et al.[6]

CAG12148 = CGSC7337[5]

Synonyms:

tsx-33

CGSC:4496

tsx-29

CGSC:4846

tsx-67

CGSC:4930

tsx-1

CGSC:5240

tsx-70

CGSC:5297

tsx-358

CGSC:5309

tsx-81

CGSC:5575

tsx-76

CGSC:5602

tsx-79

CGSC:5608

tsx-84

CGSC:5663

tsx-95

CGSC:5684

tsx-7

CGSC:5796

tsx-63

CGSC:5830

tsx-78

CGSC:5945

tsx-96

CGSC:6184

tsx-71

CGSC:6370

tsx-64

CGSC:6458

tsx-273

CGSC:6598

tsx-97

CGSC:6623

tsx-0

CGSC:6729

tsx-68

CGSC:7094

tsx-463

CGSC:7525

tsx-352

CGSC:7563

tsx-83

CGSC:7609

tsx-80

CGSC:7845

tsx-82

CGSC:7912

tsx-65

CGSC:8002

tsx-354

CGSC:8220

tsx-356

CGSC:8224

tsx-357

CGSC:8227

tsx-3

CGSC:8257

tsx-61

CGSC:8309

tsx-59

CGSC:8355

tsx-6

CGSC:8384

tsx-274

CGSC:8505

tsx-87

CGSC:8763

tsx-23

CGSC:8896

tsx-25

CGSC:8897

tsx-464

CGSC:9000

tsx-36

CGSC:9084

tsx-57

CGSC:9107

tsx-5

CGSC:9357

tsx-353

CGSC:9453

tsx-462::Tn10

CGSC:9490

tsx-93

CGSC:9803

tsx-466

CGSC:9983

tsx-69

CGSC:10430

tsx-465(Am)

CGSC:10863

amber (UAG) mutation

tsx-72

CGSC:11129

tsx-21

CGSC:11149

tsx-2

CGSC:11151

tsx-85

CGSC:11842

tsx-460

CGSC:12214

tsx-18

CGSC:13122

tsx-17

CGSC:13168

tsx-27

CGSC:13213

tsx-4

CGSC:13243

tsx-58

CGSC:13378

tsx-62

CGSC:13948

tsx-73

CGSC:14208

tsx-459

CGSC:14332

tsx-19

CGSC:15762

tsx-37

CGSC:16094

tsx-77

CGSC:17075

tsx-247::Tn10

CGSC:39365

tsx-3100::Tn10kan

CGSC:39368

tsx-35

CGSC:43389

tsx-74

CGSC:72463

tsx-75

CGSC:72484

Δtsx-773::kan

PMID:16738554

CGSC:103248


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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

ResourceResource TypeSourceNotes/Reference

JW0401

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAAAAAACATTACTGGCAGC

Primer 2:CCGAAGTTGTAACCTACTACCAG

zai-3053::Tn10

Linked marker

CAG18091 = CGSC7336[5]

est. P1 cotransduction: 23% [6]
Synonyms:zaj-3053::Tn10 nnnCAG18091 also carries proC9999 (CGSC).

zaj-3054::Tn10

Linked marker

CAG12017 = CGSC7339[5]

est. P1 cotransduction: 33% [6]
Synonyms:zba-3054::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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG11035

EchoBASE (EcoliWiki Page)

EchoBASE:EB1028

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0411

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0521

EcoGene (EcoliWiki Page)

EcoGene:EG11035

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:TSX

CGSC (EcoliWiki Page)

CGSC:62

ASAP (EcoliWikiPage)

ASAP:ABE-0001425


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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

Tsx

Synonyms

nucleoside channel, receptor of phage T6 and colicin K[1], B0411[2][1], NupA[2][1], Tsx[2][1]

Product description

nucleoside channel; receptor of phage T6 and colicin K[2][3]

Outer membrane channel for nucleosides; receptor for phage T6 and colicin K[4]

EC number (for enzymes)


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Notes

Function

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Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus

GO:0019867

outer membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0557

C

Seeded from EcoCyc 12.5 [7]

complete

GO:0046718

entry of virus into host cell

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0580

P

Seeded from EcoCyc [8]

complete

GO:0016021

integral to membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc [8]

complete

GO:0016020

membrane

GO_REF:0000002
GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR003055
SP_KW:KW-0472
SP_KW:KW-0626

C

Seeded from EcoCyc 12.5 [7]

complete

GO:0009597

detection of virus

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0580

P

Seeded from EcoCyc [8]

complete

GO:0009279

cell outer membrane

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003055

C

Seeded from EcoCyc 12.5 [7]

complete

GO:0006811

ion transport

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0406

P

Seeded from EcoCyc [8]

complete

GO:0006810

transport

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0813

P

Seeded from EcoCyc [8]

complete

GO:0005337

nucleoside transmembrane transporter activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003055

F

Seeded from EcoCyc [8]

complete

GO:0005886

plasma membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc [8]

complete

GO:0015949

nucleobase, nucleoside and nucleotide interconversion

P

Seeded from EcoCyc 11.1[3].

required fields missing

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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 TypePartnerNotesReferencesEvidence
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Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes

outer membrane

From EcoCyc[3]

Outer Membrane

PMID:10806384

EchoLocation:tsx


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Notes

Structure and Physical Properties

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Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Sequence

at EcoCyc 

MKKTLLAAGA VLALSSSFTV NAAENDKPQY LSDWWHQSVN VVGSYHTRFG PQIRNDTYLE
YEAFAKKDWF DFYGYADAPV FFGGNSDAKG IWNHGSPLFM EIEPRFSIDK LTNTDLSFGP
FKEWYFANNY IYDMGRNKDG RQSTWYMGLG TDIDTGLPMS LSMNVYAKYQ WQNYGAANEN
EWDGYRFKIK YFVPITDLWG GQLSYIGFTN FDWGSDLGDD SGNAINGIKT RTNNSIASSH
ILALNYDHWH YSVVARYWHD GGQWNDDAEL NFGNGNFNVR STGWGGYLVV GYNF
Length

294

Mol. Wt

33.589 kDa

pI

5.0 (calculated)

Extinction coefficient

108,290 (calc based on 21 Y, 14 W, and 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.

TypeResiduesDescriptionNotesReferences

motif

1-22

UniProt Manual:Signal Peptides

UniProt:P0A927


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

Structures
Models

View models at:

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Structure figures

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 typeSourceNotes/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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG11035-MONOMER

UniProt (EcoliWiki Page)

UniProt:P0A927

PFAM (EcoliWiki Page)

PFAM:PF03502

RefSeq (EcoliWiki Page)

RefSeq:NP_414945


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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

MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(s)
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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)

tsx

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Figure courtesy of RegulonDB

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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gbrowse_img.php?coord=431217..431257&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein+flip&width=400&figure=Nterm&.png
This picture shows the sequence around the N-terminus.

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

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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Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

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

TypeReferenceNotes

microarray

GEO Profiles:b0411 (EcoliWiki Page)

NCBI GEO profiles for tsx

microarray

GenExpDB:b0411 (EcoliWiki Page)

Summary of data for tsx 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 NameResource TypeDescriptionSourceNotes
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Notes

Accessions Related to tsx Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG11035

EchoBASE (EcoliWiki Page)

EchoBASE:EB1028

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0411

EcoGene (EcoliWiki Page)

EcoGene:EG11035


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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.

OrganismHomologs (Statistics)Comments

Shigella flexneri

TSX

From SHIGELLACYC

E. coli O157

TSX

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.

DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF03502


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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 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. ↑ 7.0 7.1 7.2 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  8. ↑ 8.0 8.1 8.2 8.3 8.4 8.5 8.6 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70

Categories

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