ompF:Gene: Difference between revisions
imported>Wikientrybot Refreshing information from GenBank record NC_000913 |
Table edited by Joncrz via TableEdit |
||
| Line 212: | Line 212: | ||
|- | |- | ||
| | | | ||
''ompF(del)'' (Keio:JW0912) | |||
| | | | ||
deletion | deletion | ||
| Line 224: | Line 224: | ||
PMID:16738554 | PMID:16738554 | ||
| | | | ||
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen] | [http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen] | ||
[http://cgsc2.biology.yale.edu/Strain.php?ID=107206 CGSC8925]<ref name='LIB:cgsc'/> | |||
| | | | ||
| Line 297: | Line 299: | ||
|- | |- | ||
| | | | ||
'' | ''ompF746(del)''::kan | ||
| | | | ||
| Line 329: | Line 331: | ||
| | | | ||
|- | |||
| | |||
''ompF<sup> -</sup>'' | |||
| | |||
| | |||
| | |||
Resistant to | |||
| | |||
Resistance to Cloacin DF13 | |||
| | |||
PMID:2013565 | |||
| | |||
Strain: LG1702 | |||
| | |||
Figure 3 | |||
|- class="tableEdit_footer" | |- class="tableEdit_footer" | ||
Revision as of 19:20, 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
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? |
| edit table |
Notes
Location(s) and DNA Sequence
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 |
||
|
NC_012967: 1004074..1002986 |
||||
|
NC_012759: 888085..889173 |
||||
|
W3110 |
|
W3110: 987404..986316 |
||
|
DH10B: 1040133..1039045 |
||||
| edit table |
Notes
Sequence Features
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) |
985120 |
Edman degradation |
| ||
| edit table |
Notes
Alleles and Phenotypes
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 |
|||||
|
ompF627(T2R) |
T2 resistant |
||||||
|
ompF626 |
|||||||
|
ompF254 |
|||||||
|
ompF625 |
|||||||
|
ompF746(del)::kan |
|||||||
|
ompFp9 |
protein expression |
OmpF is constitutively expressed in ompFp9 mutants, there is less repression than in wild-type strain |
|||||
|
ompF - |
Resistant to |
Resistance to Cloacin DF13 |
Strain: LG1702 |
Figure 3 | |||
| edit table |
Notes
Reduced levels of OmpF gives multiple antibiotic resistance. [11]
Genetic Interactions
| Interactor | Interaction | Allele | Score(s) | Reference(s) | Accessions | Notes |
|---|---|---|---|---|---|---|
| edit table |
Notes
Genetic Resources
See Help:Gene_resources for help entering information into the Genetic Resources table.
| Resource | Resource Type | Source | Notes/Reference |
|---|---|---|---|
|
JW0912 |
Plasmid clone |
Status:Clone OK Primer 1:GCCATGAAGCGCAATATTCTGGC Primer 2:CCGAACTGGTAAACGATACCCAC | |
|
Kohara Phage |
|||
|
Kohara Phage |
|||
|
zca-1230::Tn10 |
Linked marker |
est. P1 cotransduction: 20% [14] | |
|
Linked marker |
est. P1 cotransduction: 54% [14] | ||
| edit table |
Notes
Accessions in Other Databases
See Help:Gene_accessions for help with entering information into the Gene Accessions table.
| Database | Accession | Notes |
|---|---|---|
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
| edit table |
Notes
Links
| Name | URL | Comments |
|---|---|---|
| edit table |
<protect>
References
See Help:References for how to manage references in EcoliWiki.
- ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
- ↑ EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
- ↑ 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
- ↑ 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
- ↑ Molloy, MP et al. (1998) Extraction of membrane proteins by differential solubilization for separation using two-dimensional gel electrophoresis. Electrophoresis 19 837-44 PubMed
- ↑ 6.0 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
- ↑ 7.0 7.1 7.2 CGSC: The Coli Genetics Stock Center
- ↑ 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
- ↑ 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
- ↑ 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
- ↑ 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
- ↑ 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
- ↑ 13.0 13.1 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
- ↑ 14.0 14.1 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).