ompF:Gene: Difference between revisions

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Table edited by Joncrz via TableEdit
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Figure 3  
Figure 3  
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''ompF'' in strain JF557
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Resistant to
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Resistance to Polymyxin
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PMID:789358
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Strain: JF557
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TABLE 5
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''ompF'' in strain JF557
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Resistant to
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Resistance to Colicin A
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PMID:789358
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Strain: JF557
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TABLE 5
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''ompF'' in strain JF557
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Resistant to
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Resistance to Colicin E2
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PMID:789358
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Strain: JF557
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TABLE 5
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''ompF'' in strain JF557
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Resistant to
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Resistance to Colicin E3
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PMID:789358
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Strain: JF557
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TABLE 5
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''ompF'' in strain JF557
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Resistant to
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Resistance to Colicin E3
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PMID:789358
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Strain: JF557
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TABLE 5
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''ompF'' in strain JF557
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Resistant to
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Resistance to Colicin K
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PMID:789358
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Strain: JF557
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TABLE 5
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''ompF'' in strain JF557
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Resistant to
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Resistance to Colicin K
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PMID:789358
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Strain: JF557
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TABLE 5
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''ompF'' in strain JF557
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Resistant to
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Resistance to Colicin L
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PMID:789358
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Strain: JF557
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TABLE 5
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''ompF'' in strain JF557
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Resistant to
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Resistance to Colicin L-JF246
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PMID:789358
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Strain: JF557
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TABLE 5
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''ompF'' in strain JF557
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Resistant to
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Resistance to Chloramphenicol
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PMID:789358
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Strain: JF557
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TABLE 5
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''ompF'' in strain JF557
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Resistant to
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Resistance to tetracycline
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PMID:789358
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Strain: JF557
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TABLE 5
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''ompF'' in strain JF557
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Resistant to
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Resistance to Oxytetracycline
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PMID:789358
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Strain: JF557
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TABLE 5


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Revision as of 22:42, 26 April 2012

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

ompF

Mnemonic

Outer membrane protein

Synonyms

ECK0920, b0929, JW0912, cmlB, coa, cry, tolF, nfxB?[1][2], nfxB?

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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

21.23 minutes 

MG1655: 986205..985117
<gbrowseImage> name=NC_000913:985117..986205 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1004074..1002986
<gbrowseImage> name=NC_012967:1002986..1004074 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 888085..889173
<gbrowseImage> name=NC_012759:888085..889173 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 987404..986316
<gbrowseImage> name=AC_000091:986316..987404 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1040133..1039045
<gbrowseImage> name=NC_010473:1039045..1040133 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

985120

Edman degradation

PMID:7001461[3]
PMID:9298646[4]
PMID:9629924[5]


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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

ompF(del) (Keio:JW0912)

deletion

deletion

PMID:16738554[6]

Shigen

CGSC8925[7]

ompF627(T2R)

T2 resistant

PMID:3286621[8]

CGSC:4722

ompF626

CGSC:6264

ompF254

CGSC:6819

ompF625

CGSC:11640

ompF746(del)::kan

PMID:16738554[6]

CGSC:102178

ompFp9

protein expression

OmpF is constitutively expressed in ompFp9 mutants, there is less repression than in wild-type strain

PMID:7007334[9]

ompF -

Resistant to

Resistance to Cloacin DF13

PMID:2013565[10]

Strain: LG1702

Figure 3

ompF in strain JF557

Resistant to

Resistance to Polymyxin

PMID:789358[11]

Strain: JF557

TABLE 5

ompF in strain JF557

Resistant to

Resistance to Colicin A

PMID:789358[11]

Strain: JF557

TABLE 5

ompF in strain JF557

Resistant to

Resistance to Colicin E2

PMID:789358[11]

Strain: JF557

TABLE 5

ompF in strain JF557

Resistant to

Resistance to Colicin E3

PMID:789358[11]

Strain: JF557

TABLE 5

ompF in strain JF557

Resistant to

Resistance to Colicin E3

PMID:789358[11]

Strain: JF557

TABLE 5

ompF in strain JF557

Resistant to

Resistance to Colicin K

PMID:789358[11]

Strain: JF557

TABLE 5

ompF in strain JF557

Resistant to

Resistance to Colicin K

PMID:789358[11]

Strain: JF557

TABLE 5

ompF in strain JF557

Resistant to

Resistance to Colicin L

PMID:789358[11]

Strain: JF557

TABLE 5

ompF in strain JF557

Resistant to

Resistance to Colicin L-JF246

PMID:789358[11]

Strain: JF557

TABLE 5

ompF in strain JF557

Resistant to

Resistance to Chloramphenicol

PMID:789358[11]

Strain: JF557

TABLE 5

ompF in strain JF557

Resistant to

Resistance to tetracycline

PMID:789358[11]

Strain: JF557

TABLE 5

ompF in strain JF557

Resistant to

Resistance to Oxytetracycline

PMID:789358[11]

Strain: JF557

TABLE 5

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Notes

Reduced levels of OmpF gives multiple antibiotic resistance. [12]


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

JW0912

Plasmid clone

Shigen

PMID:16769691[13]

Status:Clone OK

Primer 1:GCCATGAAGCGCAATATTCTGGC

Primer 2:CCGAACTGGTAAACGATACCCAC

E1D1

Kohara Phage

Genobase

PMID:3038334[14]

11F5

Kohara Phage

Genobase

PMID:3038334[14]

zca-1230::Tn10

Linked marker

CAG18478 = CGSC7356[7]

est. P1 cotransduction: 20% [15]
Synonyms:zbj-1230::Tn10

zcb-3059::Tn10

Linked marker

CAG12094 = CGSC7358[7]

est. P1 cotransduction: 54% [15]

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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:EG10671

Escherichia coli str. K-12 substr. MG1655

EcoGene (EcoliWiki Page)

EcoGene:EG10671

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945554

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. ↑ EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ Chen, R et al. (1980) Primary structure of major outer membrane protein II (ompA protein) of Escherichia coli K-12. Proc. Natl. Acad. Sci. U.S.A. 77 4592-6 PubMed
  4. ↑ Link, AJ et al. (1997) Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12. Electrophoresis 18 1259-313 PubMed
  5. ↑ Molloy, MP et al. (1998) Extraction of membrane proteins by differential solubilization for separation using two-dimensional gel electrophoresis. Electrophoresis 19 837-44 PubMed
  6. ↑ 6.0 6.1 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
  7. ↑ 7.0 7.1 7.2 CGSC: The Coli Genetics Stock Center
  8. ↑ Black, PN (1988) The fadL gene product of Escherichia coli is an outer membrane protein required for uptake of long-chain fatty acids and involved in sensitivity to bacteriophage T2. J. Bacteriol. 170 2850-4 PubMed
  9. ↑ Sato, T & Yura, T (1981) Regulatory mutations conferring constitutive synthesis of major outer membrane proteins (OmpC and OmpF) in Escherichia coli. J. Bacteriol. 145 88-96 PubMed
  10. ↑ Wooldridge, KG & Williams, PH (1991) Sensitivity of Escherichia coli to cloacin DF13 involves the major outer membrane protein OmpF. J. Bacteriol. 173 2420-4 PubMed
  11. ↑ 11.00 11.01 11.02 11.03 11.04 11.05 11.06 11.07 11.08 11.09 11.10 11.11 Foulds, J (1976) TolF locus in Escherichia coli: chromosomal location and relationship to loci cmlB and tolD. J. Bacteriol. 128 604-8 PubMed
  12. ↑ Delihas, N & Forst, S (2001) MicF: an antisense RNA gene involved in response of Escherichia coli to global stress factors. J. Mol. Biol. 313 1-12 PubMed
  13. ↑ 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
  14. ↑ 14.0 14.1 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
  15. ↑ 15.0 15.1 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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