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alkA:Gene

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Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

Nomenclature

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

Standard name

alkA

Mnemonic

Alkylation

Synonyms

ECK2062, b2068, JW2053, aidA[1], aidA

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.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

46.23 minutes, 46.23 minutes 

MG1655: 2145564..2144716


REL606

NC_012967: 2080726..2079878


BW2952

NC_012759: 2037199..2038047


W3110

 

W3110: 2149677..2148829


DH10B

DH10B: 2236572..2235724


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

Coding Start (SO:0000323)

MG1655

2144716

Edman degradation

PMID:6094528[2]


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

alkAD238N

D238N

No catalytic activity, methylmethane sulfonate-sensitive

seeded from UniProt:P04395

alkAD237N

D237N

More than 30% catalytic activity, methylmethane sulfonate-resistant

seeded from UniProt:P04395

alkAQ124A

Q124A

Methylmethane sulfonate-resistant

seeded from UniProt:P04395

alkAW218A

W218A

No catalytic activity, methylmethane sulfonate-sensitive

seeded from UniProt:P04395

ΔalkA (Keio:JW2053)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC9686[4]

ΔalkA766::kan

PMID:16738554[3]

CGSC:99966


Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes

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

JW2053

Plasmid clone

Shigen

PMID:16769691[5]

Status:Clone OK

Primer 1:GCCTATACCCTGAACTGGCAGCC

Primer 2:CCTGCTTCGTCTGGTTGCCAGCC

2E1

Kohara Phage

Genobase

PMID:3038334[6]

3G4

Kohara Phage

Genobase

PMID:3038334[6]

zef-3129::Tn10

Linked marker

CAG12099 = CGSC7397[4]

est. P1 cotransduction: 4% [7]
Synonyms:zee-3129::Tn10

zbd-3104::Tn10

Linked marker

CAG12021 = CGSC7344[4]

est. P1 cotransduction: 29% [7]
Synonyms:zbc-3105::Tn10, zbd-3105::Tn10

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:EG11222

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11222

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001200

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947371

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1204

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006848

Escherichia coli str. K-12 substr. MG1655

Notes

Links

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References

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

  1. Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. Nakabeppu, Y et al. (1984) Structure and expression of the alkA gene of Escherichia coli involved in adaptive response to alkylating agents. J. Biol. Chem. 259 13730-6 PubMed EcoliWiki page
  3. 3.0 3.1 Baba, T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 2 2006.0008 PubMed EcoliWiki page
  4. 4.0 4.1 4.2 CGSC: The Coli Genetics Stock Center
  5. Kitagawa, M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res. 12 291-9 PubMed EcoliWiki page
  6. 6.0 6.1 Kohara, Y et al. (1987) The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell 50 495-508 PubMed EcoliWiki page
  7. 7.0 7.1 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).

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