pepP:Gene: Difference between revisions

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Refreshing information from GenBank record NC_000913
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Table edited by Joncrz via TableEdit
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!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
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ΔpepP (Keio:JW2876)
''pepP(del)'' (Keio:JW2876)
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deletion
deletion
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PMID:16738554
PMID:16738554
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[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br>[http://cgsc2.biology.yale.edu/Strain.php?ID=108512 CGSC10231]<ref name='LIB:cgsc'/>  
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]
 
[http://cgsc2.biology.yale.edu/Strain.php?ID=108512 CGSC10231]<ref name='LIB:cgsc'/>  
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''&#916;pepP759::kan''
''pepP759(del)::kan''
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Revision as of 19:24, 11 January 2013

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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 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

pepP

Mnemonic

Peptidase

Synonyms

ECK2903, b2908, JW2876[1], JW2876

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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

65.77 minutes 

MG1655: 3052862..3051537
<gbrowseImage> name=NC_000913:3051537..3052862 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2940591..2939266
<gbrowseImage> name=NC_012967:2939266..2940591 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2938685..2940010
<gbrowseImage> name=NC_012759:2938685..2940010 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3053496..3052171
<gbrowseImage> name=AC_000091:3052171..3053496 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3146732..3145407
<gbrowseImage> name=NC_010473:3145407..3146732 source=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

3051540

Edman degradation

PMID:2659585[2]
PMID:2851590[3]


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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

pepP(del) (Keio:JW2876)

deletion

deletion

PMID:16738554[4]

Shigen

CGSC10231[5]

pepP759(del)::kan

PMID:16738554[4]

CGSC:102288


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Notes

Genetic Interactions

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

JW2876

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCAGTGAGATATCCCGGCAAGA

Primer 2:CCTTGCTTTCTCGCAGCAACCAT

10B4

Kohara Phage

Genobase

PMID:3038334[7]

1A2

Kohara Phage

Genobase

PMID:3038334[7]

recD1901::Tn10

Linked marker

CAG12135 = CGSC7429[5]

est. P1 cotransduction: % [8]

speA210::Tn10

Linked marker

CAG12168 = CGSC7431[5]

est. P1 cotransduction: 26% [8]
Synonyms:zgd-210::Tn10, zgf-210::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:EG10697

Escherichia coli str. K-12 substr. MG1655

EcoGene (EcoliWiki Page)

EcoGene:EG10697

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947385

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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<protect>

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. ↑ Yoshimoto, T et al. (1989) Sequencing and high expression of aminopeptidase P gene from Escherichia coli HB101. J. Biochem. 105 412-6 PubMed
  3. ↑ Yoshimoto, T et al. (1988) Cloning and expression of aminopeptidase P gene from Escherichia coli HB101 and characterization of expressed enzyme. J. Biochem. 104 93-7 PubMed
  4. ↑ 4.0 4.1 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
  5. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 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
  7. ↑ 7.0 7.1 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
  8. ↑ 8.0 8.1 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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