EcoliHub logo

Try the new EcoliHub and let us know what you'd like to see.

tbpA:On One Page

From EcoliWiki

Jump to: navigation, search
Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

Quickview

[back to top]



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

Standard Name

tbpA

Gene Synonym(s)

ECK0069, b0068, JW0067, sfuA, thiB, yabL[1]

Product Desc.

SfuA[2][3];

Component of thiamin ABC transporter[2][3]

Periplasmic thiamin binding protein; monomeric[4]

Product Synonyms(s)

thiamin transporter subunit[1], periplasmic-binding component of ABC superfamily[1], B0068[2][1], YabL[2][1], SfuA[2][1], ThiB[2][1], TbpA[2][1]

Function from GO
Knock-Out Phenotype
Regulation/Expression

transcription unit(s): thiQ[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(tbpA)    Textpresso(tbpA)

edit table

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

Notes

[back to top]


tbpA-thiPQ operon expression is controlled by a thiamine pyrophosphate (TPP) responsive riboswitch in the 5' UTR. This THI element has been reported in intergenic sRNA searches as sroA/tpe79. The tbpA riboswitch is the target for the antibiotic pyrithiamine. The corrected U00096.2 sequence revises the sequence of the TbpA signal peptide, previous thought to be 14 aa.[4]



Gene

[back to top]


Nomenclature

[back to top]


See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

tbpA

Mnemonic
Synonyms

ECK0069, b0068, JW0067, sfuA, thiB, yabL[1]

edit table

Notes

Location(s) and DNA Sequence

[back to top]


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

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

1.61 minutes 

MG1655: 75480..74497
gbrowse_img.php?coord=74497..75480&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 75480..74497
gbrowse_img.php?coord=74497..75480&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

edit table

Notes

Sequence Features

[back to top]


See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature typeLocationDescription
edit table

Notes

Alleles and Phenotypes

[back to top]


See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

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

ΔtbpA (Keio:JW0067)

deletion

deletion

PMID:16738554

Shigen
CGSC8369[5]

ΔtbpA775::kan

PMID:16738554

CGSC:103108


edit table

Notes

Genetic Resources

[back to top]


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

ResourceResource TypeSourceNotes/Reference

JW0067

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCTTAAAAAAATGTCTGCCCCT

Primer 2:CCACGGCTGACGGCGCGTTGCCA

carB96::Tn10

Linked marker

CAG12093 = CGSC7322[5]

est. P1 cotransduction: 16% [6]
Synonyms:car-96::Tn10

leuO3051::Tn10

Linked marker

CAG12095 = CGSC7324[5]

est. P1 cotransduction: 74% [6]
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).

edit table

Notes

Accessions in Other Databases

[back to top]


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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG11574

EchoBASE (EcoliWiki Page)

EchoBASE:EB1534

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0068

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0084

EcoGene (EcoliWiki Page)

EcoGene:EG11574

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:TBPA

CGSC (EcoliWiki Page)

CGSC:34691

ASAP (EcoliWikiPage)

ASAP:ABE-0000249


edit table

Notes

Links

[back to top]



Product(s)

[back to top]



Nomenclature

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

Standard name

TbpA

Synonyms

thiamin transporter subunit[1], periplasmic-binding component of ABC superfamily[1], B0068[2][1], YabL[2][1], SfuA[2][1], ThiB[2][1], TbpA[2][1]

Product description

SfuA[2][3];

Component of thiamin ABC transporter[2][3]

Periplasmic thiamin binding protein; monomeric[4]

EC number (for enzymes)


edit table

Notes

Function

[back to top]


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:0042597

periplasmic space

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0574

C

Seeded from EcoCyc 12.5 [7]

complete

GO:0042626

ATPase activity, coupled to transmembrane movement of substances

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005967

F

Seeded from EcoCyc [8]

complete

GO:0030288

outer membrane-bounded periplasmic space

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005948
InterPro:IPR005967

C

Seeded from EcoCyc [8]

complete

GO:0006810

transport

GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR005948
InterPro:IPR005967
InterPro:IPR006061
InterPro:IPR011587
SP_KW:KW-0813

P

Seeded from EcoCyc 12.5 [7]

complete

GO:0005524

ATP binding

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005967

F

Seeded from EcoCyc [8]

complete

GO:0005215

transporter activity

GO_REF:0000002
GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005948
InterPro:IPR006061
InterPro:IPR011587

F

Seeded from EcoCyc 12.5 [7]

complete

GO:0009228

thiamin biosynthetic process

P

Seeded from EcoCyc 11.1[3].

required fields missing

edit table

Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner TypePartnerNotesReferencesEvidence

Protein

Subunits of thiamin ABC transporter

could be indirect


edit table

Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes

periplasm

From EcoCyc[3]


edit table

Notes

Structure and Physical Properties

[back to top]


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

Sequence

at EcoCyc 

MLKKCLPLLL LCTAPVFAKP VLTVYTYDSF AADWGPGPVV KKAFEADCNC ELKLVALEDG
VSLLNRLRME GKNSKADVVL GLDNNLLDAA SKTGLFAKSG VAADAVNVPG GWNNDTFVPF
DYGYFAFVYD KNKLKNPPQS LKELVESDQN WRVIYQDPRT STPGLGLLLW MQKVYGDDAP
QAWQKLAKKT VTVTKGWSEA YGLFLKGESD LVLSYTTSPA YHILEEKKDN YAAANFSEGH
YLQVEVAART AASKQPELAQ KFLQFMVSPA FQNAIPTGNW MYPVANVTLP AGFEKLTKPA
TTLEFTPAEV AAQRQAWISE WQRAVSR
Length

327

Mol. Wt

36.163 kDa

pI

7.3 (calculated)

Extinction coefficient

68,870 - 69,370 (calc based on 13 Y, 9 W, and 4 C residues)

edit table


Domains/Motifs/Modification Sites

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

TypeResiduesDescriptionNotesReferences
edit table


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

Structures
Models

View models at:

edit table

Structure figures

Notes

Gene Product Resources

[back to top]


See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource typeSourceNotes/Reference
edit table

Notes

Accessions in Other Databases

[back to top]


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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:SFUA-MONOMER

UniProt (EcoliWiki Page)

UniProt:P31550

RefSeq (EcoliWiki Page)

RefSeq:NP_414610


edit table

Notes

Links

[back to top]




Expression

[back to top]



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

[back to top]


See Help:Cellular levels

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

Notes

Transcription and Transcriptional Regulation

[back to top]


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

Transcription unit(s)

thiQ

edit table
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

[back to top]


gbrowse_img.php?coord=75460..75500&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

[back to top]


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

Allele NameMutationPhenotypeReference
edit table


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

TypeReferenceNotes

microarray

GEO Profiles:b0068 (EcoliWiki Page)

NCBI GEO profiles for tbpA

microarray

GenExpDB:b0068 (EcoliWiki Page)

Summary of data for tbpA from multiple microarray studies

edit table


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

Resource NameResource TypeDescriptionSourceNotes
edit table

Notes

Accessions Related to tbpA Expression

[back to top]


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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG11574

EchoBASE (EcoliWiki Page)

EchoBASE:EB1534

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0068

EcoGene (EcoliWiki Page)

EcoGene:EG11574


edit table

Notes

Links

[back to top]



Evolution

[back to top]



Homologs in Other Organisms

[back to top]


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

OrganismHomologs (Statistics)Comments

Shigella flexneri

TBPA

From SHIGELLACYC

E. coli O157

TBPA

From ECOO157CYC

edit table

Notes

Links

[back to top]



References

[back to top]


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

  1. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 2.11 2.12 2.13 2.14 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 3.5 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. ↑ 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 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70

Categories

[back to top]


Retrieved from "http://ecoliwiki.net/colipedia/index.php/tbpA:On_One_Page"
Personal tools