ompR:Gene: Difference between revisions

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|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Location(s) and DNA Sequence|Location(s) and DNA Sequence]]
|{{Sub}}[[#Location(s) and DNA Sequence|Location(s) and DNA Sequence]]
|{{Sub}}[[#Sequence Features|Sequence Features]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Genetic Interactions | Genetic Interactions]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
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{|{{Prettytable}}
{|   id="S46a9f51a5451a"  class=" tableEdit Gene_nomenclature_table" 
 
|-
!align=left {{table_heading_style}} |Standard name
||
''ompR''
|-
|-
!{{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Mnemonic
|
||
''ompR''
Outer membrane protein
|-
|-
!{{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Synonyms
|
||
''ECK3392, b3405, JW3368, cry, ompB, kmt''<ref name='LIB:Riley_2006'/>, kmt''


|-
|- class="tableEdit_footer"
!{{table_heading_style}} |Synonyms
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.17359.S46a9f51a5451a&page=17359&pagename={{FULLPAGENAMEE}}&type=1&template=Gene_nomenclature_table edit table]</span> ||
|
''ECK3392, b3405, JW3368, cry, ompB, kmt''<ref name='LIB:Riley_2006'/>
|-
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===Notes===
===Notes===
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{|class = 'sortable' {{Prettytable}} id='145281'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="L46a9f51ad5582"  class=" tableEdit Gene_location_table" 
|- {{table_heading_style}}
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!Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
|-
|-  
|
|
MG1655
MG1655
Line 72: Line 76:
76.17 minutes&nbsp;
76.17 minutes&nbsp;
|
|
MG1655: 3534606..3533887<br />{{GBrowseFigureByCoord|3532887|3535606|ecoli|MG1655}}
MG1655: 3534606..3533887<br /><gbrowseImage>
name=NC_000913:3533887..3534606
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10672 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10672 EcoCyc]
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?q=MG1655:3532887..3535606 GBrowse(MG1655)]
{{GBrowseLink|MG1655|NC_000913|3532887|3535606|GBrowse(MG1655)}}
   
   
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?plugin=FastaDumper&name=MG1655:3533887..3534606&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|MG1655|NC_000913|3533887|3534606|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10672 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG10672 EcoCyc Sequence Dump]  
|-
|-
|
[[REL606]]
|
 
|
NC_012967: 3465268..3464549<br /><gbrowseImage>
name=NC_012967:3464549..3465268
source=REL606
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|REL606|NC_012967|3464549|3465268|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|3464549|3465268|FASTA Dump}}
|-
|
[[BW2952]]
|
 
|
NC_012759: 3421044..3421763<br /><gbrowseImage>
name=NC_012759:3421044..3421763
source=BW2952
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|BW2952|NC_012759|3421044|3421763|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|NC_012759|3421044|3421763|FASTA Dump}}
|-  
|
|
W3110
W3110
Line 86: Line 127:
&nbsp;
&nbsp;
|
|
W3110: 4103832..4104551<br />{{GBrowseFigureByCoord|4102832|4105551|ecoli_W3110|W3110}}  
W3110: 4103832..4104551<br /><gbrowseImage>
name=NC_007779:4103832..4104551
source=W3110
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|W3110|NC_007779|4102832|4105551|GBrowse(W3110)}}
|
{{GBrowseFastaLink|W3110|NC_007779|4103832|4104551|FASTA Dump}}  
|-
|
[[DH10B]]
|
 
|
DH10B: 3632351..3631632<br /><gbrowseImage>
name=NC_010473:3631632..3632351
source=DH10B
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?q=W3110:4102832..4105551 GBrowse(W3110)]
{{GBrowseLink|DH10B|NC_010473|3630194|3633789|GBrowse(DH10B)}}
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?plugin=FastaDumper&name=W3110:4103832..4104551&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|DH10B|NC_010473|3630194|3633789|FASTA Dump}}
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===Notes===
===Notes===
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!Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
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<protect><!--Sequence_notes--></protect>
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====Notes====
====Notes====
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{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" {{Prettytable}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" id="F46a9f51bdf20d"  class=" tableEdit Gene_allele_table dataTable" 
|- {{table_heading_style}}
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!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
|-  
|-  
|
|
&Delta;ompR (Keio:JW3368)
''ompR(del)'' (Keio:JW3368)
|
deletion
|
|
deletion
deletion
|
|
|
PMID:16738554
|
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br />[http://cgsc2.biology.yale.edu/Strain.php?ID=108791 CGSC10510]<ref name='LIB:cgsc'/>
|
|-
|
[http://asap.ahabs.wisc.edu/asap/feature_info.php?FeatureID=ABE-0011110 ompR::Tn5KAN-I-SceI] (FB21168)
|
Insertion at nt 434 in Plus orientation
|
|
|
|
PMID:15262929
|
[http://www.genome.wisc.edu/resources/forms/strainrequest.htm E. coli Genome Project:FB21168]
|
does not contain [[pKD46]]
|-
|
[http://asap.ahabs.wisc.edu/asap/feature_info.php?FeatureID=ABE-0011110 ompR::Tn5KAN-I-SceI] (FB21169)
|
Insertion at nt 434 in Plus orientation
|
|
|
|
PMID:15262929
|
[http://www.genome.wisc.edu/resources/forms/strainrequest.htm E. coli Genome Project:FB21169]
|
contains [[pKD46]]
|-
|
''ompR(del)''::kan
|
|
deletion
deletion
|
|


|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|Acetate]]
|
PMID:16095938
|
|


|
|
[[PMID:16738554]]<ref name=PMID:16738554/>
|-
|
''ompR(del)''::kan
|
|
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br>[http://cgsc2.biology.yale.edu/Strain.php?ID=108791 CGSC10510]<ref name='LIB:cgsc'/>
deletion
|
 
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|a-Ketoglutarate]]
|
PMID:16095938
|
 
|
|
   
   
Line 162: Line 294:
polar
polar
|
|
[[PMID:3157679]]<ref name=PMID:3157679/>
PMID:3157679
|
|
[[cgscmutation:10590|CGSC:10590]]
[[cgscmutation:10590|CGSC:10590]]
|
|
amber (UAG) mutation  
amber (UAG) mutation  
|-
|
''ompR739(del)''::kan
|
|
|
|
|
PMID:16738554
|
[[cgscmutation:102184|CGSC:102184]]
|
|-
|
ompR101
|
164-182
|
inframe deletion
|
Growth Phenotype
|
produces no protein even though ompR mRNA is present
|
PMID:1695892
|
|
|-
|
ompR1
|
deletion
|
deletion of amino acids 164-182 near the C-terminus
|
lost proteins
|
lack both OmpF and OmpC proteins
|
PMID:3010044
PMID:6799653
|
|
|-
|
ompR3
|
point mutation at N-terminal
|
at amino acid 15 (C43 to T)
|
increased protein expression
|
OmpC expression is significant even in low-osmolarity medium
|
PMID:3010044
|
|
|-
|
ompR4
|
point mutation
|
C211 is changed to T at amino acid 71
|
protein expression
|
Expression of OmpC was significant even in low-osmolarity medium
|
PMID:3010044
|
|
|-
|
ompR20
|
point mutation at the C-terminal
|
C448 is changed to T at amino acid 150
|
protein expression
|
OmpF expression was significant in high-osmolarity medium
|
PMID:3010044
|
|
|-
|
ompR2
|
point mutation at the C-terminal
|
G607 was changed to A at amino acid 203
|
protein expression
|
OmpF expression was significant in high-osmolarity medium
|
PMID:3010044
PMID:6799653
|
|
|-
|
ompR77
|
point mutation
|
Leu-to-Gln at amino acid 16 from the N-terminus of OmpR
|
protein expression
|
Suppresses envZ11 pleiotropic defects
|
PMID:3536870
|
|
|-
|
ompRres
|
|
|
protein expresison
|
ompF expression increases with increasing osmolarity and ompC expression has no apparent change
|
PMID:6378888
|
|
|-
|
''ompR(del)''
|
deletion
|
|
Change in the expression of a gene
|
Decrease in the expression of ''rybB'' gene.
|
PMID:17416652
|
|
See Figure 1 A. 
|-
|
''ompR'' in strain 834
|
|
|
Resistant to
|
chlormaphenicol resistant
|
PMID:346560
|
Strain: 834
|
|-
|
''ompR'' in strain 834
|
|
|
Resistant to
|
copper resistance
|
PMID:346560
|
Strain: 834
|
|-
|
''ompR'' in strain CS197
|
|
|
Resistant to
|
Resistant to colicin A
|
PMID:346560
|
CS197
|
Table 2
|-
|
''ompR'' in strain CS197
|
|
|
Resistant to
|
Resistant to colicin E2
|
PMID:346560
|
CS197
|
Table 2
|-
|
''ompR'' in strain CS197
|
|
|
Resistant to
|
Resistant to colicin E3
|
PMID:346560
|
CS197
|
Table 2
|-
|
''ompR'' in strain CS197
|
|
|
Resistant to
|
Resistant to colicin K
|
PMID:346560
|
CS197
|
Table 2
|-
|
''ompR'' in strain CS197
|
|
|
Resistant to
|
Resistant to colicin L
|
PMID:346560
|
CS197
|
Table 2
|-
|
''ompR'' in strain CS197
|
|
|
Resistant to
|
Resistant to colicin S4
|
PMID:346560
|
CS197
|
Table 2
|-
|
''ompR'' in strain CS197
|
|
|
Resistant to
|
partially Resistant to colicin X
|
PMID:346560
|
CS197
|
Table 2
|-
|
''ompR'' in strain CS197
|
|
|
Resistant to
|
Resistant to Me1
|
PMID:346560
|
CS197
|
Table 2
|-
|
''ompR'' in strain CS197
|
|
|
Resistant to
|
Resistant to hy2
|
PMID:346560
|
CS197
|
Table 2
|-
|
''ompR'' in strain CS197
|
|


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Resistant to
|
Resistant to Tulb
|
PMID:346560
|
CS197
|
Table 2
|-
|
''ompB1422''
|
 
|
 
|
Resistant to
|
Resistance to beta lactam Cefoxitin
|
PMID:6760806
|
Strains: B1436, B1437 (''omp1350''), pop1389 (''ompB101'')
|
Table 3.
|-
|
''ompB1422''
|
 
|
 
|
Resistant to
|
Resistance to Beta Lactam Ampicillin.
|
PMID:6760806
|
Strains: B1436, B1437 (''omp1350''), pop1389 (''ompB101'')
|
Table 3.
|-
|
''ompR<sup>-</sup>''
|
 
|
 
|
Resistant to
|
Small increase in Microcin B17 resistance
|
PMID:3543211
|
 
|
See table 4 for results of level of resistance test. 
|-
|
''ompR<sup>-</sup>''''recA <sup>-</sup>''
|
 
|
 
|
Resistant to
|
Double mutation caused partial increase in Microcin B17 resistance
|
PMID:3543211
|
 
|
See table 4 for results of resistance experiment. 
 
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===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
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!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
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===Notes===


==Genetic Resources==
==Genetic Resources==
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!Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
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JW3368
JW3368
Line 197: Line 797:
[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
|
|
[[PMID:16769691]]<ref name=PMID:16769691/>
PMID:16769691


Status:Clone OK
Status:Clone OK
Line 204: Line 804:


Primer 2:CCTGCTTTAGAGCCGTCCGGTAC  
Primer 2:CCTGCTTTAGAGCCGTCCGGTAC  
|-
|-
|
[[:Category:Kohara_Phage:2F6|2F6]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=620 Genobase]
|
PMID:3038334
|-
|
[[:Category:Kohara_Phage:1C9|1C9]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=621 Genobase]
|
PMID:3038334
|-  
|
|
[[yhfT:Gene|zhf-3084::Tn10]]
[[yhfT:Gene|zhf-3084::Tn10]]
Line 212: Line 830:
CAG18456 = [http://cgsc2.biology.yale.edu/Strain.php?ID=61450 CGSC7576]<ref name='LIB:cgsc'/>
CAG18456 = [http://cgsc2.biology.yale.edu/Strain.php?ID=61450 CGSC7576]<ref name='LIB:cgsc'/>
|
|
est. P1 cotransduction: 30% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 30% <ref name='LIB:Nichols_linked_Tn'/> <br />
 
Synonyms:zhe-3084::Tn10nnnCAG18456 also carries cysG0 (CGSC).  
Synonyms:zhe-3084::Tn10
|-  
 
 
CAG18456 also carries cysG0 (CGSC).  
|-
|
|
[[glgP:Gene|glgP721::Tn10]]
[[glgP:Gene|glgP721::Tn10]]
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CAG18638 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40317 CGSC7451]<ref name='LIB:cgsc'/>
CAG18638 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40317 CGSC7451]<ref name='LIB:cgsc'/>
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est. P1 cotransduction: 32% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 32% <ref name='LIB:Nichols_linked_Tn'/> <br />
Synonyms:zhg-3086::Tn10, zhh-21::Tn10


Synonyms:zhg-3086::Tn10, zhh-21::Tn10
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===Notes===
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!Database!!Accession!!Notes
!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10672 EcoCyc:EG10672] 
EcoCyc:EG10672
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
[[EcoGene]]
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[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0666 EchoBASE:EB0666] 
EcoGene:EG10672
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
[[RegulonDB]]
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[http://chase.ou.edu/macro/searchlink.php?bnum=b3405 EcoliGenExpDB:b3405] 
RegulonDB:ECK120000665
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
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[http://BioCyc.org/ECOL199310/new-image?object=C4181 ECOL199310CYC:C4181]
[http://www.ncbi.nlm.nih.gov/gene?term=947913 GeneID:947913]
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Escherichia coli str. K-12 substr. MG1655
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EchoBASE]]
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[http://ecogene.org/geneinfo.php?eg_id=EG10672 EcoGene:EG10672] 
EchoBASE:EB0666
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
[[ASAP]]
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[http://BioCyc.org/ECOO157/new-image?object=OMPR ECOO157CYC:OMPR] 
ASAP:ABE-0011110
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
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[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
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[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/434 CGSC:434] 
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__NOTOC__
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===Categories===
===Categories===
[[Category:Gene List:MG1655]]
[[Category:Gene List:MG1655]]
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[[Category:Genes in the Keio knockout collection]]
[[Category:Genes in the Keio knockout collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:omp genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

Latest revision as of 20:47, 19 September 2013

{{#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

ompR

Mnemonic

Outer membrane protein

Synonyms

ECK3392, b3405, JW3368, cry, ompB, kmt[1], kmt

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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

76.17 minutes 

MG1655: 3534606..3533887
<gbrowseImage> name=NC_000913:3533887..3534606 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3465268..3464549
<gbrowseImage> name=NC_012967:3464549..3465268 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3421044..3421763
<gbrowseImage> name=NC_012759:3421044..3421763 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4103832..4104551
<gbrowseImage> name=NC_007779:4103832..4104551 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3632351..3631632
<gbrowseImage> name=NC_010473:3631632..3632351 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
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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

ompR(del) (Keio:JW3368)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC10510[3]

ompR::Tn5KAN-I-SceI (FB21168)

Insertion at nt 434 in Plus orientation

PMID:15262929[4]

E. coli Genome Project:FB21168

does not contain pKD46

ompR::Tn5KAN-I-SceI (FB21169)

Insertion at nt 434 in Plus orientation

PMID:15262929[4]

E. coli Genome Project:FB21169

contains pKD46

ompR(del)::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938[5]

ompR(del)::kan

deletion

Biolog:respiration

unable to respire a-Ketoglutarate

PMID:16095938[5]

ompR321(Am, polar)

polar

PMID:3157679[6]

CGSC:10590

amber (UAG) mutation

ompR739(del)::kan

PMID:16738554[2]

CGSC:102184

ompR101

164-182

inframe deletion

Growth Phenotype

produces no protein even though ompR mRNA is present

PMID:1695892[7]

ompR1

deletion

deletion of amino acids 164-182 near the C-terminus

lost proteins

lack both OmpF and OmpC proteins

PMID:3010044[8]

PMID:6799653[9]

ompR3

point mutation at N-terminal

at amino acid 15 (C43 to T)

increased protein expression

OmpC expression is significant even in low-osmolarity medium

PMID:3010044[8]

ompR4

point mutation

C211 is changed to T at amino acid 71

protein expression

Expression of OmpC was significant even in low-osmolarity medium

PMID:3010044[8]

ompR20

point mutation at the C-terminal

C448 is changed to T at amino acid 150

protein expression

OmpF expression was significant in high-osmolarity medium

PMID:3010044[8]

ompR2

point mutation at the C-terminal

G607 was changed to A at amino acid 203

protein expression

OmpF expression was significant in high-osmolarity medium

PMID:3010044[8]

PMID:6799653[9]

ompR77

point mutation

Leu-to-Gln at amino acid 16 from the N-terminus of OmpR

protein expression

Suppresses envZ11 pleiotropic defects

PMID:3536870[10]

ompRres

protein expresison

ompF expression increases with increasing osmolarity and ompC expression has no apparent change

PMID:6378888[11]

ompR(del)

deletion

Change in the expression of a gene

Decrease in the expression of rybB gene.

PMID:17416652[12]

See Figure 1 A.

ompR in strain 834

Resistant to

chlormaphenicol resistant

PMID:346560[13]

Strain: 834

ompR in strain 834

Resistant to

copper resistance

PMID:346560[13]

Strain: 834

ompR in strain CS197

Resistant to

Resistant to colicin A

PMID:346560[13]

CS197

Table 2

ompR in strain CS197

Resistant to

Resistant to colicin E2

PMID:346560[13]

CS197

Table 2

ompR in strain CS197

Resistant to

Resistant to colicin E3

PMID:346560[13]

CS197

Table 2

ompR in strain CS197

Resistant to

Resistant to colicin K

PMID:346560[13]

CS197

Table 2

ompR in strain CS197

Resistant to

Resistant to colicin L

PMID:346560[13]

CS197

Table 2

ompR in strain CS197

Resistant to

Resistant to colicin S4

PMID:346560[13]

CS197

Table 2

ompR in strain CS197

Resistant to

partially Resistant to colicin X

PMID:346560[13]

CS197

Table 2

ompR in strain CS197

Resistant to

Resistant to Me1

PMID:346560[13]

CS197

Table 2

ompR in strain CS197

Resistant to

Resistant to hy2

PMID:346560[13]

CS197

Table 2

ompR in strain CS197

Resistant to

Resistant to Tulb

PMID:346560[13]

CS197

Table 2

ompB1422

Resistant to

Resistance to beta lactam Cefoxitin

PMID:6760806[14]

Strains: B1436, B1437 (omp1350), pop1389 (ompB101)

Table 3.

ompB1422

Resistant to

Resistance to Beta Lactam Ampicillin.

PMID:6760806[14]

Strains: B1436, B1437 (omp1350), pop1389 (ompB101)

Table 3.

ompR-

Resistant to

Small increase in Microcin B17 resistance

PMID:3543211[15]

See table 4 for results of level of resistance test.

ompR-'recA -

Resistant to

Double mutation caused partial increase in Microcin B17 resistance

PMID:3543211[15]

See table 4 for results of resistance experiment.

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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

JW3368

Plasmid clone

Shigen

PMID:16769691[16]

Status:Clone OK

Primer 1:GCCCAAGAGAACTACAAGATTCT

Primer 2:CCTGCTTTAGAGCCGTCCGGTAC

2F6

Kohara Phage

Genobase

PMID:3038334[17]

1C9

Kohara Phage

Genobase

PMID:3038334[17]

zhf-3084::Tn10

Linked marker

CAG18456 = CGSC7576[3]

est. P1 cotransduction: 30% [18]
Synonyms:zhe-3084::Tn10nnnCAG18456 also carries cysG0 (CGSC).

glgP721::Tn10

Linked marker

CAG18638 = CGSC7451[3]

est. P1 cotransduction: 32% [18]
Synonyms:zhg-3086::Tn10, zhh-21::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

EcoCyc:EG10672

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10672

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000665

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947913

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0666

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011110

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. ↑ 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. ↑ 4.0 4.1 Kang, Y et al. (2004) Systematic mutagenesis of the Escherichia coli genome. J. Bacteriol. 186 4921-30 PubMed
  5. ↑ 5.0 5.1 Ito, M et al. (2005) Functional analysis of 1440 Escherichia coli genes using the combination of knock-out library and phenotype microarrays. Metab. Eng. 7 318-27 PubMed
  6. ↑ Garrett, S et al. (1985) Isolation and characterization of delta ompB strains of Escherichia coli by a general method based on gene fusions. J. Bacteriol. 162 840-4 PubMed
  7. ↑ Coyer, J et al. (1990) micF RNA in ompB mutants of Escherichia coli: different pathways regulate micF RNA levels in response to osmolarity and temperature change. J. Bacteriol. 172 4143-50 PubMed
  8. ↑ 8.0 8.1 8.2 8.3 8.4 Nara, F et al. (1986) Molecular analysis of mutant ompR genes exhibiting different phenotypes as to osmoregulation of the ompF and ompC genes of Escherichia coli. Mol Gen Genet 202 194-9 PubMed
  9. ↑ 9.0 9.1 Hall, MN & Silhavy, TJ (1981) Genetic analysis of the ompB locus in Escherichia coli K-12. J. Mol. Biol. 151 1-15 PubMed
  10. ↑ Matsuyama, S et al. (1986) Interaction between two regulatory proteins in osmoregulatory expression of ompF and ompC genes in Escherichia coli: a novel ompR mutation suppresses pleiotropic defects caused by an envZ mutation. J. Bacteriol. 168 1309-14 PubMed
  11. ↑ Nara, F et al. (1984) Mutation causing reverse osmoregulation of synthesis of OmpF, a major outer membrane protein of Escherichia coli. J. Bacteriol. 159 688-92 PubMed
  12. ↑ Thompson, KM et al. (2007) SigmaE regulates and is regulated by a small RNA in Escherichia coli. J. Bacteriol. 189 4243-56 PubMed
  13. ↑ 13.00 13.01 13.02 13.03 13.04 13.05 13.06 13.07 13.08 13.09 13.10 13.11 Pugsley, AP & Schnaitman, CA (1978) Outer membrane proteins of Escherichia coli. VII. Evidence that bacteriophage-directed protein 2 functions as a pore. J. Bacteriol. 133 1181-9 PubMed
  14. ↑ 14.0 14.1 Jaffe, A et al. (1982) Role of porin proteins OmpF and OmpC in the permeation of beta-lactams. Antimicrob. Agents Chemother. 22 942-8 PubMed
  15. ↑ 15.0 15.1 Laviña, M et al. (1986) Identification, mapping, cloning and characterization of a gene (sbmA) required for microcin B17 action on Escherichia coli K12. J. Gen. Microbiol. 132 1685-93 PubMed
  16. ↑ 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
  17. ↑ 17.0 17.1 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
  18. ↑ 18.0 18.1 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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