copA:Gene: Difference between revisions

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Revision as of 20:28, 26 July 2010

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes 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

copA

Mnemonic

Copper

Synonyms

ECK0478, b0484, JW0473, ybaR[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.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

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MG1655: 510603..508099
<gbrowseImage> name=NC_000913:508099..510603 source=ecoli preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 483547..481043
<gbrowseImage> name=NC_012967:481043..483547 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 410858..413362
<gbrowseImage> name=NC_012759:410858..413362 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 510603..508099
<gbrowseImage> name=AC_000091:508099..510603 source=ecoli_W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 449934..447430
<gbrowseImage> name=NC_010473:447430..449934 source=ecoli_DH10B preset=GeneLocation </gbrowseImage>

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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 Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

508102

Edman degradation

PMID:9868784[2]


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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.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

copAC113A

C113A

No effect

seeded from UniProt:Q59385

copAC479A

C479A

Loss of copper resistance, transport and phosphoenzyme formation

seeded from UniProt:Q59385

copAC481A,H

C481A,H

Loss of copper resistance, transport and phosphoenzyme formation

seeded from UniProt:Q59385

copAC110A

C110A

No effect

seeded from UniProt:Q59385

copA

Deletion

copAC14A

C14A

No effect

seeded from UniProt:Q59385

copAC17A

C17A

No effect

seeded from UniProt:Q59385

ΔcopA (Keio:JW0473)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC8625[4]

ΔcopA1::kan

CGSC:77264

ΔcopA767::kan

PMID:16738554[3]

CGSC:100374


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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

JW0473

Plasmid clone

Shigen

PMID:16769691[5]

Status:Clone OK

Primer 1:gccTCACAAACTATCGACCTGACCCTGGAC

Primer 2:ccTTCCTTCGGTTTAAACCGCAGCAACCGG

gsk-3055::Tn10

Linked marker

CAG12154 = CGSC7341[4]

est. P1 cotransduction: 79% [6]
Synonyms:zbb-30-55::TnlO, zba-3055::Tn10

purK79::Tn10

Linked marker

CAG12171 = CGSC7342[4]

est. P1 cotransduction: 15% [6]
Synonyms:purE79::Tn10

copA::kan

Strain

CN2328

PMID:11167016[7]

pCN2345

Plasmid Clone

copA with own promoter cloned into pBR322

PMID:11167016[7]

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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

EcoCyc (EcoliWiki Page)

EcoCyc:G6260

EchoBASE (EcoliWiki Page)

EchoBASE:EB3035

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0484

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0604

EcoGene (EcoliWiki Page)

EcoGene:EG13246

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:YBAR

ASAP (EcoliWikiPage)

ASAP:ABE-0001681


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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. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ Wasinger, VC & Humphery-Smith, I (1998) Small genes/gene-products in Escherichia coli K-12. FEMS Microbiol. Lett. 169 375-82 PubMed
  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
  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
  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 Petersen, C & Møller, LB (2000) Control of copper homeostasis in Escherichia coli by a P-type ATPase, CopA, and a MerR-like transcriptional activator, CopR. Gene 261 289-98 PubMed

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