rhmD:Gene: Difference between revisions

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!align=left {{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Standard name
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''yfaW''  
''yfaW''
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!align=left {{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
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''ΔyfaW728::kan''
yfaWH325N
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H325N
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Loss of activity. 2-fold decrease in substrate affinity
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PMID:16738554
seeded from [http://www.uniprot.org/uniprot/P77215 UniProt:P77215]  
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[[cgscmutation:104632|CGSC:104632]]
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yfaWH325N
''ΔyfaW728::kan''
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H325N
 
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Loss of activity. 2-fold decrease in substrate affinity
 
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PMID:16738554
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[[cgscmutation:104632|CGSC:104632]]
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seeded from [http://www.uniprot.org/uniprot/P77215 UniProt:P77215]


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[[Category:Genes in the ASKA clone collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:yfa genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:yfa genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:y genes]]

Revision as of 22:06, 25 February 2010

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

yfaW

Mnemonic
Synonyms

ECK2240, b2247, JW2241[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

50.83 minutes, 50.83 minutes 

MG1655: 2359448..2358231
gbrowse_img.php?coord=2358231..2359448&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 2307939..2306722
gbrowse_img.php?coord=2306722..2307939&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 2366096..2364879
gbrowse_img.php?coord=2364879..2366096&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 2450436..2449219
gbrowse_img.php?coord=2449219..2450436&genome=ecoli_DH10B&name=DH10B&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 type Location Description
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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

ΔyfaW (Keio:JW2241)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC9807[3]

yfaWH29N

H29N

Loss of activity due to absence of substrate binding

seeded from UniProt:P77215

yfaWH277N

H277N

35-fold decrease in activity. 59- fold decrease in substrate affinity

seeded from UniProt:P77215

yfaWH325N

H325N

Loss of activity. 2-fold decrease in substrate affinity

seeded from UniProt:P77215

ΔyfaW728::kan

PMID:16738554[2]

CGSC:104632


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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

JW2241

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCGAGAACATCATGACCCTACC

Primer 2:CCGTGGCTGTAGGGGCGTTTCAA

zfa-723::Tn10

Linked marker

CAG12178 gyrA+ = CGSC7526[3]

est. P1 cotransduction: 58% [5]
Synonyms:zei-723::Tn10, zfa-723::Tn10 nnnThe original CAG12178 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).

zfb-223::Tn10

Linked marker

CAG18484 = CGSC7406[3]

est. P1 cotransduction: 29% [5]
Synonyms:zej-223::Tn10

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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:G7160

EchoBASE (EcoliWiki Page)

EchoBASE:EB3838

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2247

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C2789

EcoGene (EcoliWiki Page)

EcoGene:EG14085

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:Z3505

ASAP (EcoliWikiPage)

ASAP:ABE-0007436


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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. ↑ 2.0 2.1 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
  3. ↑ 3.0 3.1 3.2 CGSC: The Coli Genetics Stock Center
  4. ↑ 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
  5. ↑ 5.0 5.1 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).

Categories

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