allR:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

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

Standard name

AllR

Synonyms

DNA-binding transcriptional repressor[1], B0506[2][1], YbbU[2][1], AllR[2][1] , ECK0499, glxA3, JW0494, ybbU, b0506

Product description

AllR transcriptional regulator[2]; AllR transcriptional repressor[3]

Repressor for all (allantoin) and gcl (glyoxylate) operons; glyoxylate-induced[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:0003700

transcription factor activity

PMID:10601204[5]

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

PMID:10601204[5]

ISS: Inferred from Sequence or Structural Similarity

NCBI_gi:1786468
NCBI_gi:1736468
NCBI_gi:1790449
NCBI_gi:1789999
NCBI_gi:1790752
NCBI_gi:1799601
1786541
NCBI_gi:3172124
NCBI_gi:3264839

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

PMID:16546208[6]

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

PMID:16546208[6]

ISS: Inferred from Sequence or Structural Similarity

NCBI_gi:1786468
NCBI_gi:1736468
NCBI_gi:1790449
NCBI_gi:1789999
NCBI_gi:1790752
NCBI_gi:1799601
1786541
NCBI_gi:3172124
NCBI_gi:3264839

F

Seeded from EcoCyc (v14.0)

complete

GO:0016566

specific transcriptional repressor activity

PMID:10601204[5]

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0016566

specific transcriptional repressor activity

PMID:10601204[5]

ISS: Inferred from Sequence or Structural Similarity

NCBI_gi:1786468
NCBI_gi:1736468
NCBI_gi:1790449
NCBI_gi:1789999
NCBI_gi:1790752
NCBI_gi:1799601
1786541
NCBI_gi:3172124
NCBI_gi:3264839

F

Seeded from EcoCyc (v14.0)

complete

GO:0016566

specific transcriptional repressor activity

PMID:16546208[6]

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0016566

specific transcriptional repressor activity

PMID:16546208[6]

ISS: Inferred from Sequence or Structural Similarity

NCBI_gi:1786468
NCBI_gi:1736468
NCBI_gi:1790449
NCBI_gi:1789999
NCBI_gi:1790752
NCBI_gi:1799601
1786541
NCBI_gi:3172124
NCBI_gi:3264839

F

Seeded from EcoCyc (v14.0)

complete

GO:0032582

negative regulation of gene-specific transcription

PMID:10601204[5]

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc (v14.0)

complete

GO:0032582

negative regulation of gene-specific transcription

PMID:10601204[5]

ISS: Inferred from Sequence or Structural Similarity

NCBI_gi:1786468
NCBI_gi:1736468
NCBI_gi:1790449
NCBI_gi:1789999
NCBI_gi:1790752
NCBI_gi:1799601
1786541
NCBI_gi:3172124
NCBI_gi:3264839

P

Seeded from EcoCyc (v14.0)

complete

GO:0032582

negative regulation of gene-specific transcription

PMID:16546208[6]

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc (v14.0)

complete

GO:0032582

negative regulation of gene-specific transcription

PMID:16546208[6]

ISS: Inferred from Sequence or Structural Similarity

NCBI_gi:1786468
NCBI_gi:1736468
NCBI_gi:1790449
NCBI_gi:1789999
NCBI_gi:1790752
NCBI_gi:1799601
1786541
NCBI_gi:3172124
NCBI_gi:3264839

P

Seeded from EcoCyc (v14.0)

complete

GO:0006974

response to DNA damage stimulus

PMID:11967071[7]

IEP: Inferred from Expression Pattern

P

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

hupA

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rplA

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rplB

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rplR

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rplS

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rplU

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rplX

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rpsE

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rpsF

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rpsG

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rpsL

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rpsM

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rpsN

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rpsO

PMID:15690043[8]

Experiment(s):EBI-889682

Protein

rmuC

PMID:16606699[9]

Experiment(s):EBI-1136950

Protein

tatE

PMID:16606699[9]

Experiment(s):EBI-1136950

Protein

glpK

PMID:16606699[9]

Experiment(s):EBI-1136950

Protein

sdhA

PMID:16606699[9]

Experiment(s):EBI-1136950

Protein

rplU

PMID:19402753[10]

LCMS(ID Probability):99.6

Protein

rplS

PMID:19402753[10]

LCMS(ID Probability):99.6

Protein

rplR

PMID:19402753[10]

LCMS(ID Probability):99.5

Protein

rpsF

PMID:19402753[10]

LCMS(ID Probability):99.6

Protein

rpsM

PMID:19402753[10]

LCMS(ID Probability):99.6

Protein

rpsL

PMID:19402753[10]

LCMS(ID Probability):99.6

Protein

rpsO

PMID:19402753[10]

LCMS(ID Probability):99.6

Protein

hupA

PMID:19402753[10]

LCMS(ID Probability):99.6

Protein

rpsN

PMID:19402753[10]

LCMS(ID Probability):99.6

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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
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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 

MTEVRRRGRP GQAEPVAQKG AQALERGIAI LQYLEKSGGS SSVSDISLNL DLPLSTTFRL
LKVLQAADFV YQDSQLGWWH IGLGVFNVGA AYIHNRDVLS VAGPFMRRLM LLSGETVNVA
IRNGNEAVLI GQLECKSMVR MCAPLGSRLP LHASGAGKAL LYPLAEEELM SIILQTGLQQ
FTPTTLVDMP TLLKDLEQAR ELGYTVDKEE HVVGLNCIAS AIYDDVGSVV AAISISGPSS
RLTEDRFVSQ GELVRDTARD ISTALGLKAH P
Length

271

Mol. Wt

29.269 kDa

pI

6.0 (calculated)

Extinction coefficient

19,940 - 20,315 (calc based on 6 Y, 2 W, and 3 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

139..264

PF01614 Bacterial transcriptional regulator

PMID:19920124[11]

Domain

23..74

PF09339 IclR helix-turn-helix domain

PMID:19920124[11]

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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=allR 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:16128490

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945333

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001750

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0ACN4

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6276

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13616

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945333

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002884

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3382

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 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 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 5.4 5.5 Cusa, E et al. (1999) Genetic analysis of a chromosomal region containing genes required for assimilation of allantoin nitrogen and linked glyoxylate metabolism in Escherichia coli. J. Bacteriol. 181 7479-84 PubMed
  6. ↑ 6.0 6.1 6.2 6.3 6.4 6.5 Walker, JR et al. (2006) Structural and biochemical study of effector molecule recognition by the E.coli glyoxylate and allantoin utilization regulatory protein AllR. J. Mol. Biol. 358 810-28 PubMed
  7. ↑ Khil, PP & Camerini-Otero, RD (2002) Over 1000 genes are involved in the DNA damage response of Escherichia coli. Mol. Microbiol. 44 89-105 PubMed
  8. ↑ 8.00 8.01 8.02 8.03 8.04 8.05 8.06 8.07 8.08 8.09 8.10 8.11 8.12 8.13 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  9. ↑ 9.0 9.1 9.2 9.3 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  10. ↑ 10.0 10.1 10.2 10.3 10.4 10.5 10.6 10.7 10.8 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  11. ↑ 11.0 11.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

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