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araC:On One Page

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Standard Name

araC

Gene Synonym(s)

ECK0065, b0064, JW0063[1]

Product Desc.

AraC[2][3];

Component of AraC transcriptional dual regulator[2][3] Transcriptional activator for the ara regulon; autorepressor in the absence of arabinose co-activator[4]

Product Synonyms(s)

DNA-binding transcriptional dual regulator[1], B0064[2][1], AraC[2][1], transcriptional regulator for ara operon[2][1]

Function from GO

Biological Process

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): araC[2], OP00004

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(araC)    Textpresso(araC)

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Notes

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AraC activates transcrption for araE and the araBAD and araFGH operons; AraC transcriptional activator family prototype.[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

araC

Mnemonic

Arabinose

Synonyms

ECK0065, b0064, JW0063[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

1.52 minutes 

MG1655: 70387..71265
gbrowse_img.php?coord=70387..71265&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 73191..74069
gbrowse_img.php?coord=73191..74069&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 70387..71265
gbrowse_img.php?coord=70387..71265&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

BW2952

NC_012759: 70386..71264
gbrowse_img.php?coord=70386..71264&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

ΔaraC (Keio:JW0063)

deletion

deletion

PMID:16738554

Shigen

araC14

CGSC:4493

araC2022(Const)

constitutive

CGSC:6926

araC859

CGSC:8508

ΔaraC766

CGSC:10895

araC17

CGSC:13810

araC203

CGSC:14408

araC510

CGSC:14414

araC219

CGSC:27427

araC205

CGSC:27482

araC212

CGSC:27486

araC221

CGSC:27490

araC501

CGSC:27494

araC502

CGSC:27495

araC505

CGSC:27496

araC506

CGSC:27497

araC60

CGSC:27516

araC64

CGSC:27517

araC67

CGSC:27518

araC70

CGSC:27519

araC605(FucR, Const)

"D-fucose resistant, constitutive"

CGSC:27569


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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

JW0063

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGCTGAAGCGCAAAATGATCC

Primer 2:CCTGACAACTTGACGGCTACAT

carB96::Tn10

Linked marker

CAG12093 = CGSC7322[5]

est. P1 cotransduction: 21% [6]
Synonyms:car-96::Tn10

leuO3051::Tn10

Linked marker

CAG12095 = CGSC7324[5]

est. P1 cotransduction: 63% [6]
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).

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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:EG10054

EchoBASE (EcoliWiki Page)

EchoBASE:EB0052

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0064

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0076

EcoGene (EcoliWiki Page)

EcoGene:EG10054

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:ARAC

CGSC (EcoliWiki Page)

CGSC:1026

ASAP (EcoliWikiPage)

ASAP:ABE-0000236


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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

AraC

Synonyms

DNA-binding transcriptional dual regulator[1], B0064[2][1], AraC[2][1], transcriptional regulator for ara operon[2][1]

Product description

AraC[2][3];

Component of AraC transcriptional dual regulator[2][3] Transcriptional activator for the ara regulon; autorepressor in the absence of arabinose co-activator[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:0043565

sequence-specific DNA binding

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000005

F

Seeded from EcoCyc [7]

complete

GO:0019568

arabinose catabolic process

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0054

P

Seeded from EcoCyc 12.5 [8]

complete

GO:0006355

regulation of transcription, DNA-dependent

GO_REF:0000002
GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR000005
InterPro:IPR003313
SP_KW:KW-0805

P

Seeded from EcoCyc [7]

complete

GO:0005975

carbohydrate metabolic process

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0119

P

Seeded from EcoCyc [7]

complete

GO:0006350

transcription

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc [7]

complete

GO:0003677

DNA binding

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR012287
SP_KW:KW-0238

F

Seeded from EcoCyc [7]

complete

GO:0003700

transcription factor activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000005

F

Seeded from EcoCyc [7]

complete

GO:0005622

intracellular

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000005

C

Seeded from EcoCyc [7]

complete

GO:0005737

cytoplasm

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc 12.5 [8]

complete

GO:0045449

regulation of transcription

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012287

P

Seeded from EcoCyc [7]

complete

GO:0016564

transcription repressor activity

F

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0019568

arabinose catabolic process

PMID:13829634

IMP: Inferred from Mutant Phenotype

P

complete

GO:0016563

transcription activator activity

F

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0016052

carbohydrate catabolic process

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

Protein

Subunits of AraC transcriptional dual regulator

homodimer

Protein

gabT

PMID:16606699

Experiment(s):EBI-1135479

Protein

groL

PMID:16606699

Experiment(s):EBI-1135479

Small Molecule

arabinose

inducer

Small Molecule

fucose

anti-inducer


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Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes
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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 

MAEAQNDPLL PGYSFNAHLV AGLTPIEANG YLDFFIDRPL GMKGYILNLT IRGQGVVKNQ
GREFVCRPGD ILLFPPGEIH HYGRHPEARE WYHQWVYFRP RAYWHEWLNW PSIFANTGFF
RPDEAHQPHF SDLFGQIINA GQGEGRYSEL LAINLLEQLL LRRMEAINES LHPPMDNRVR
EACQYISDHL ADSNFDIASV AQHVCLSPSR LSHLFRQQLG ISVLSWREDQ RISQAKLLLS
TTRMPIATVG RNVGFDDQLY FSRVFKKCTG ASPSEFRAGC EEKVNDVAVK LS
Length

292

Mol. Wt

33.384 kDa

pI

7.0 (calculated)

Extinction coefficient

47,900 - 48,525 (calc based on 10 Y, 6 W, and 5 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
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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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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:PD00242

UniProt (EcoliWiki Page)

UniProt:P0A9E0

PFAM (EcoliWiki Page)

PFAM:PF02311

RefSeq (EcoliWiki Page)

RefSeq:NP_414606


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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)

araC

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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=70367..70407&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein&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

GenExpDB:b0064 (EcoliWiki Page)

Summary of data for araC from multiple microarray studies

microarray

GEO Profiles:b0064 (EcoliWiki Page)

NCBI GEO profiles for araC

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

Resource NameResource TypeDescriptionSourceNotes

GFP Fusion

Intergenic region (69973..70452) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ20; Well:F6[9]

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Notes

Accessions Related to araC Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10054

EchoBASE (EcoliWiki Page)

EchoBASE:EB0052

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0064

EcoGene (EcoliWiki Page)

EcoGene:EG10054


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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

ARAC

From SHIGELLACYC

E. coli O157

ARAC

From ECOO157CYC

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Do-It-Yourself Web Tools

Notes

Families

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DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF02311


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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. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 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 3.6 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 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 7.3 7.4 7.5 7.6 7.7 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  8. ↑ 8.0 8.1 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  9. ↑ Zaslaver A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat Methods 3: 623-8 PubMed EcoliWiki page

Categories

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