ppc: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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****************************************************************************************** -->{{Gene_nomenclature_help}}
{|{{Prettytable}}
{|  id="L46aa033823c60"  class=" tableEdit Gene_nomenclature_table" 
 
|-
|-
!{{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Standard name
|
||
''ppc''  
''ppc''
|-
|-
!{{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
|
||
 
PEP carboxylase
|-
|-
!{{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
|
||
''ECK3947, b3956, JW3928, asp, glu, pepC''<ref name='LIB:Riley_2006'/>
''ECK3947, b3956, JW3928, asp, glu, pepC''<ref name='LIB:Riley_2006'/>
|-
 
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{{Gene_nomenclature_help}}
 
<!--Nomenclature_notes--></protect>
<!--Nomenclature_notes--></protect>
===Notes===
===Notes===
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{|class = 'sortable' {{Prettytable}} id='148613'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="T46aa0338a6de8"  class=" tableEdit Gene_location_table" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
|-
|-  
|
|
MG1655
MG1655
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89.41 minutes, 89.41 minutes&nbsp;
89.41 minutes, 89.41 minutes&nbsp;
|
|
MG1655: 4151121..4148470<br />{{GBrowseFigureByCoord|4147470|4152121|ecoli|MG1655}}
MG1655: 4151121..4148470<br /><gbrowseImage>
name=NC_000913:4148470..4151121
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10756 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10756 EcoCyc]
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?q=MG1655:4147470..4152121 GBrowse(MG1655)]
{{GBrowseLink|MG1655|NC_000913|4147470|4152121|GBrowse(MG1655)}}
   
   
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?plugin=FastaDumper&name=MG1655:4148470..4151121&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|MG1655|NC_000913|4148470|4151121|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10756 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG10756 EcoCyc Sequence Dump]  
|-
|-
|
[[REL606]]
|
 
|
NC_012967: 4133205..4130554<br /><gbrowseImage>
name=NC_012967:4130554..4133205
source=REL606
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|REL606|NC_012967|4130554|4133205|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|4130554|4133205|FASTA Dump}}
|-
|
[[BW2952]]
|
 
|
NC_012759: 4038139..4040790<br /><gbrowseImage>
name=NC_012759:4038139..4040790
source=BW2952
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|BW2952|NC_012759|4038139|4040790|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|NC_012759|4038139|4040790|FASTA Dump}}
|-  
|
|
W3110
W3110
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&nbsp;
&nbsp;
|
|
W3110: 3483583..3486234<br />{{GBrowseFigureByCoord|3482583|3487234|ecoli_W3110|W3110}}  
W3110: 3483583..3486234<br /><gbrowseImage>
name=NC_007779:3483583..3486234
source=W3110
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|W3110|NC_007779|3482583|3487234|GBrowse(W3110)}}  
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?q=W3110:3482583..3487234 GBrowse(W3110)]
{{GBrowseFastaLink|W3110|NC_007779|3483583|3486234|FASTA Dump}}
|-  
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?plugin=FastaDumper&name=W3110:3483583..3486234&plugin_action=Go FASTA Dump]
[[DH10B]]
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|
DH10B: 4250818..4248167<br /><gbrowseImage>
name=NC_010473:4248167..4250818
source=DH10B
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|DH10B|NC_010473|4242865|4256120|GBrowse(DH10B)}}
|
{{GBrowseFastaLink|DH10B|NC_010473|4242865|4256120|FASTA Dump}}
 
|- class="tableEdit_footer"
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<!--Location_notes--></protect>
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===Notes===
===Notes===
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{|class = 'sortable' {{Prettytable}} id='148614'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="X46aa03396d0bc"  class=" tableEdit Gene_sequence_features_table" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
|-class='sortbottom'
 
|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18469.X46aa03396d0bc&page=18469&pagename={{FULLPAGENAMEE}} edit table] || ||
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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="Z46aa0339b7bf6"  class=" tableEdit Gene_allele_table dataTable" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!|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
|-
|
ppcR587S
|
|
R587S
|
|
Loss of activity
|
|
|
seeded from [http://www.uniprot.org/uniprot/P00864 UniProt:P00864]
|-
|
ppcH579P
|
|
H579P
|
|
5.4% of wild-type activity
|
|
|
seeded from [http://www.uniprot.org/uniprot/P00864 UniProt:P00864]
|-
|
ppcH579N
|
|
H579N
|
|
29% of wild-type activity
|
|
|
seeded from [http://www.uniprot.org/uniprot/P00864 UniProt:P00864]
|-
|
ppcH138N
|
|
H138N
|
|
Loss of activity
|
|
|
seeded from [http://www.uniprot.org/uniprot/P00864 UniProt:P00864]
|-  
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|
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|
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[[PMID:16738554]]<ref name=PMID:16738554/>
PMID:16738554
|
|
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br>[http://cgsc2.biology.yale.edu/Strain.php?ID=109118 CGSC10837]<ref name='LIB:cgsc'/>  
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br>[http://cgsc2.biology.yale.edu/Strain.php?ID=109118 CGSC10837]<ref name='LIB:cgsc'/>  
|
|-
|
&Delta;ppc::kan
|
deletion
|
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|Dextrin]]
|
PMID:16095938
|
|
|-
|
&Delta;ppc::kan
|
deletion
|
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|D-Sorbitol]]
|
PMID:16095938
|
|
|-
|
&Delta;ppc::kan
|
deletion
|
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|DL-a-Glycerol]]
|
PMID:16095938
|
|
|-
|
&Delta;ppc::kan
|
deletion
|
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|D-Galactoniate]]
|
PMID:16095938
|
|
|-
|
&Delta;ppc::kan
|
deletion
|
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|D-Galacturonate]]
|
PMID:16095938
|
|
|-
|
&Delta;ppc::kan
|
deletion
|
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|D-Glucuronate]]
|
PMID:16095938
|
|
|-
|
&Delta;ppc::kan
|
deletion
|
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|Acetate]]
|
PMID:16095938
|
|
|-
|
&Delta;ppc::kan
|
deletion
|
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|a-Hydroxybutyrate]]
|
PMID:16095938
|
|
|-
|
&Delta;ppc::kan
|
deletion
|
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|a-Ketobutyrate]]
|
PMID:16095938
|
|
|-
|
&Delta;ppc::kan
|
deletion
|
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|Glucuronamide]]
|
PMID:16095938
|
|
|-
|
&Delta;ppc::kan
|
deletion
|
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|L-Alanine]]
|
PMID:16095938
|
|
|-
|
&Delta;ppc::kan
|
deletion
|
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|L-Serine]]
|
PMID:16095938
|
|
|-
|
&Delta;ppc::kan
|
deletion
|
|
[[Biolog]]:respiration
|
unable to respire [[Carbon sources|Uridine]]
|
PMID:16095938
|
|
|
   
   
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|
|
[[PMID:13791860]]<ref name=PMID:13791860/> [[PMID:4874804]]<ref name=PMID:4874804/> [[PMID:14292146]]<ref name=PMID:14292146/>
PMID:13791860 PMID:4874804 PMID:14292146
|
|
[[cgscmutation:7662|CGSC:7662]]
[[cgscmutation:7662|CGSC:7662]]
Line 179: Line 532:


|
|
[[PMID:4874804]]<ref name=PMID:4874804/> [[PMID:14292146]]<ref name=PMID:14292146/>
PMID:4874804 PMID:14292146
|
|
[[cgscmutation:7826|CGSC:7826]]
[[cgscmutation:7826|CGSC:7826]]
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|
|
[[PMID:16738554]]<ref name=PMID:16738554/>
PMID:16738554
|
|
[[cgscmutation:102416|CGSC:102416]]
[[cgscmutation:102416|CGSC:102416]]
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|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18469.Z46aa0339b7bf6&page=18469&pagename={{FULLPAGENAMEE}}&type=&template=Gene_allele_table edit table]</span> || || || || || || ||
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{{Gene_alleles_help}}
 
<protect><!--Alleles_notes--></protect>
<protect><!--Alleles_notes--></protect>
===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
<protect><!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.18469.Y4e04c150e9ceb-->
<!--
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Y4e04c150e9ceb"  class=" tableEdit Genetic_interaction_table dataTable" 
|- {{table_heading_style}}
!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=bc145ea147f7e36caf09c1bfeed4ee9d.18469.Y4e04c150e9ceb&page=18469&pagename={{FULLPAGENAMEE}}&type=0&template=Genetic_interaction_table edit table]</span> || || || || || ||
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===Notes===


==Genetic Resources==
==Genetic Resources==
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{|class = 'sortable' {{Prettytable}} id='148616'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="J46aa033a7e274"  class=" tableEdit Gene_resource_table" 
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!Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
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JW3928
JW3928
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[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 272: Line 647:


Primer 2:CCGCCGGTATTACGCATACCTGC  
Primer 2:CCGCCGGTATTACGCATACCTGC  
|-
|-
|
[[:Category:Kohara_Phage:4G11|4G11]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=535 Genobase]
|
PMID:3038334
|-
|
[[:Category:Kohara_Phage:8H10|8H10]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=536 Genobase]
|
PMID:3038334
|-  
|
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[[pflD:Gene|pflD501::Tn10]]
[[pflD:Gene|pflD501::Tn10]]
Line 280: Line 673:
CAG18477 = [http://cgsc2.biology.yale.edu/Strain.php?ID=37152 CGSC7470]<ref name='LIB:cgsc'/>
CAG18477 = [http://cgsc2.biology.yale.edu/Strain.php?ID=37152 CGSC7470]<ref name='LIB:cgsc'/>
|
|
est. P1 cotransduction: 84% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 84% <ref name='LIB:Nichols_linked_Tn'/> <br />
 
Synonyms:zij-501::Tn10 nnnCAG18477 also carries metF79(Am) (CGSC).  
Synonyms:zij-501::Tn10  
|-  
 
 
CAG18477 also carries metF79(Am) (CGSC).  
|-
|
|
[[argE:Gene|argE86::Tn10]]
[[argE:Gene|argE86::Tn10]]
Line 295: Line 684:
|
|
est. P1 cotransduction: 88% <ref name='LIB:Nichols_linked_Tn'/>  
est. P1 cotransduction: 88% <ref name='LIB:Nichols_linked_Tn'/>  
|-class='sortbottom'
 
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|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18469.J46aa033a7e274&page=18469&pagename={{FULLPAGENAMEE}}&type=&template=Gene_resource_table edit table]</span> || || ||
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<protect><!--Gene_resources_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;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="V46aa033b2b3a8"  class=" tableEdit Gene_accessions_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10756 EcoCyc:EG10756]
|
|-
|
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
|
|
[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0749 EchoBASE:EB0749]
EcoCyc:EG10756
|
|
''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]])
[[EcoGene]]
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[http://chase.ou.edu/macro/searchlink.php?bnum=b3956 EcoliGenExpDB:b3956]
EcoGene:EG10756
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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]])
[[RegulonDB]]
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[http://BioCyc.org/ECOL199310/new-image?object=C4915 ECOL199310CYC:C4915]
RegulonDB:ECK120000747
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
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[http://ecogene.org/geneinfo.php?eg_id=EG10756 EcoGene:EG10756]
[http://www.ncbi.nlm.nih.gov/gene?term=948457 GeneID:948457]
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Escherichia coli str. K-12 substr. MG1655
|-  
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[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
[[EchoBASE]]
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[http://BioCyc.org/ECOO157/new-image?object=PPC ECOO157CYC:PPC]
EchoBASE:EB0749
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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]])
[[ASAP]]
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[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/368 CGSC:368]
ASAP:ABE-0012950
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-  
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[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
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[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0012950&formSubmitReturn=1 ASAP:ABE-0012950] 
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===Categories===
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[[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:ppc genes]]
[[Category:ppc genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

Latest revision as of 20:50, 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

ppc

Mnemonic

PEP carboxylase

Synonyms

ECK3947, b3956, JW3928, asp, glu, pepC[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

89.41 minutes, 89.41 minutes 

MG1655: 4151121..4148470
<gbrowseImage> name=NC_000913:4148470..4151121 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4133205..4130554
<gbrowseImage> name=NC_012967:4130554..4133205 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4038139..4040790
<gbrowseImage> name=NC_012759:4038139..4040790 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3483583..3486234
<gbrowseImage> name=NC_007779:3483583..3486234 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4250818..4248167
<gbrowseImage> name=NC_010473:4248167..4250818 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

ppcR587S

R587S

Loss of activity

seeded from UniProt:P00864

ppcH579P

H579P

5.4% of wild-type activity

seeded from UniProt:P00864

ppcH579N

H579N

29% of wild-type activity

seeded from UniProt:P00864

ppcH138N

H138N

Loss of activity

seeded from UniProt:P00864

Δppc (Keio:JW3928)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC10837[3]

Δppc::kan

deletion

Biolog:respiration

unable to respire Dextrin

PMID:16095938[4]

Δppc::kan

deletion

Biolog:respiration

unable to respire D-Sorbitol

PMID:16095938[4]

Δppc::kan

deletion

Biolog:respiration

unable to respire DL-a-Glycerol

PMID:16095938[4]

Δppc::kan

deletion

Biolog:respiration

unable to respire D-Galactoniate

PMID:16095938[4]

Δppc::kan

deletion

Biolog:respiration

unable to respire D-Galacturonate

PMID:16095938[4]

Δppc::kan

deletion

Biolog:respiration

unable to respire D-Glucuronate

PMID:16095938[4]

Δppc::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938[4]

Δppc::kan

deletion

Biolog:respiration

unable to respire a-Hydroxybutyrate

PMID:16095938[4]

Δppc::kan

deletion

Biolog:respiration

unable to respire a-Ketobutyrate

PMID:16095938[4]

Δppc::kan

deletion

Biolog:respiration

unable to respire Glucuronamide

PMID:16095938[4]

Δppc::kan

deletion

Biolog:respiration

unable to respire L-Alanine

PMID:16095938[4]

Δppc::kan

deletion

Biolog:respiration

unable to respire L-Serine

PMID:16095938[4]

Δppc::kan

deletion

Biolog:respiration

unable to respire Uridine

PMID:16095938[4]

ppc-2

PMID:13791860[5] PMID:4874804[6] PMID:14292146[7]

CGSC:7662

ppc-1

PMID:4874804[6] PMID:14292146[7]

CGSC:7826

ppc-3

CGSC:10656

ppc-5::kan

CGSC:76204

Δppc-742::kan

PMID:16738554[2]

CGSC:102416


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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

JW3928

Plasmid clone

Shigen

PMID:16769691[8]

Status:Clone OK

Primer 1:GCCAACGAACAATATTCCGCATT

Primer 2:CCGCCGGTATTACGCATACCTGC

4G11

Kohara Phage

Genobase

PMID:3038334[9]

8H10

Kohara Phage

Genobase

PMID:3038334[9]

pflD501::Tn10

Linked marker

CAG18477 = CGSC7470[3]

est. P1 cotransduction: 84% [10]
Synonyms:zij-501::Tn10 nnnCAG18477 also carries metF79(Am) (CGSC).

argE86::Tn10

Linked marker

CAG12185 = CGSC7471[3]

est. P1 cotransduction: 88% [10]

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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:EG10756

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10756

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000747

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948457

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0749

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012950

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. ↑ 4.00 4.01 4.02 4.03 4.04 4.05 4.06 4.07 4.08 4.09 4.10 4.11 4.12 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
  5. ↑ ADELBERG, EA & BURNS, SN (1960) Genetic variation in the sex factor of Escherichia coli. J. Bacteriol. 79 321-30 PubMed
  6. ↑ 6.0 6.1 Vanderwinkel, E & De Vlieghere, M (1968) [Physiology and genetics of isocitritase and the malate synthases of Escherichia coli]. Eur. J. Biochem. 5 81-90 PubMed
  7. ↑ 7.0 7.1 GLANSDORFF, N (1965) TOPOGRAPHY OF COTRANSDUCIBLE ARGININE MUTATIONS IN ESCHERICHIA COLI K-12. Genetics 51 167-79 PubMed
  8. ↑ 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
  9. ↑ 9.0 9.1 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
  10. ↑ 10.0 10.1 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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