ampC: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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{| id="J46aa086c39a3a"  class=" tableEdit Gene_nomenclature_table"   
{|   id="J46aa086c39a3a"  class=" tableEdit Gene_nomenclature_table"   


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!align=left {{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
||
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''ECK4146, b4150, JW4111, ampA''<ref name='LIB:Riley_2006'/>
''ECK4146, b4150, JW4111, ampA''<ref name='LIB:Riley_2006'/>, ampA''


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{|   id="G46aa086cbd26a"  class=" tableEdit Gene_location_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="G46aa086cbd26a"  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
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94.31 minutes, 94.31 minutes&nbsp;
94.31 minutes, 94.31 minutes&nbsp;
|
|
MG1655: 4376967..4375834<br />{{GBrowseFigureByCoord|4375834|4376967|ecoli|MG1655}}
MG1655: 4376967..4375834<br /><gbrowseImage>
name=NC_000913:4375834..4376967
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
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*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10040 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10040 EcoCyc]
{{GBrowseLink|ecoli|NC_000913|4374834|4377967|GBrowse(MG1655)}}
{{GBrowseLink|MG1655|NC_000913|4374834|4377967|GBrowse(MG1655)}}
   
   
|
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{{GBrowseFastaLink|ecoli|NC_000913|4375834|4376967|FASTA Dump}}
{{GBrowseFastaLink|MG1655|NC_000913|4375834|4376967|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10040 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG10040 EcoCyc Sequence Dump]  
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NC_012967: 4357655..4356522<br />{{GBrowseFigureByCoord|4356522|4357655|REL606|NC_012967}}
NC_012967: 4357655..4356522<br /><gbrowseImage>
name=NC_012967:4356522..4357655
source=REL606
preset=GeneLocation
</gbrowseImage>
 
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{{GBrowseLink|REL606|NC_012967|4356522|4357655|GBrowse (REL606)}}
{{GBrowseLink|REL606|NC_012967|4356522|4357655|GBrowse (REL606)}}
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{{GBrowseFastaLink|REL606|NC_012967|4356522|4357655|FASTA Dump}}  
{{GBrowseFastaLink|REL606|NC_012967|4356522|4357655|FASTA Dump}}  
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[[BW2952]]
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NC_012759: 4314569..4315702<br /><gbrowseImage>
name=NC_012759:4314569..4315702
source=BW2952
preset=GeneLocation
</gbrowseImage>
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{{GBrowseLink|BW2952|NC_012759|4314569|4315702|GBrowse (BW2952)}}
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{{GBrowseFastaLink|BW2952|NC_012759|4314569|4315702|FASTA Dump}}
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&nbsp;
&nbsp;
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W3110: 4383624..4382491<br />{{GBrowseFigureByCoord|4382491|4383624|ecoli_W3110|W3110}}
W3110: 4383624..4382491<br /><gbrowseImage>
name=NC_007779:4382491..4383624
source=W3110
preset=GeneLocation
</gbrowseImage>
 
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{{GBrowseLink|ecoli_W3110|AC_000091|4381491|4384624|GBrowse(W3110)}}  
{{GBrowseLink|W3110|NC_007779|4381491|4384624|GBrowse(W3110)}}  
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{{GBrowseFastaLink|ecoli_W3110|AC_000091|4382491|4383624|FASTA Dump}}  
{{GBrowseFastaLink|W3110|NC_007779|4382491|4383624|FASTA Dump}}  
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DH10B: 4477329..4476196<br />{{GBrowseFigureByCoord|4476196|4477329|ecoli_DH10B|DH10B}}
DH10B: 4477329..4476196<br /><gbrowseImage>
name=NC_010473:4476196..4477329
source=DH10B
preset=GeneLocation
</gbrowseImage>
 
|
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{{GBrowseLink|ecoli_DH10B|NC_010473|4473930|4479595|GBrowse(DH10B)}}
{{GBrowseLink|DH10B|NC_010473|4473930|4479595|GBrowse(DH10B)}}
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{{GBrowseFastaLink|ecoli_DH10B|NC_010473|4473930|4479595|FASTA Dump}}  
{{GBrowseFastaLink|DH10B|NC_010473|4473930|4479595|FASTA Dump}}  


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{|   id="F46aa086d850da"  class=" tableEdit Gene_sequence_features_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="F46aa086d850da"  class=" tableEdit Gene_sequence_features_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
|-
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Coding Start (SO:0000323)
|
[[MG1655]]
|
4375837
|
Edman degradation
|
PMID:6795623<br />
|


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{| {{Prettytable}} id="U46aa086dd060f"  class=" tableEdit Gene_allele_table dataTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" id="U46aa086dd060f"  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
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&Delta;ampC (Keio:JW4111)
''ampC(del)'' (Keio:JW4111)
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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=109241 CGSC10960]<ref name='LIB:cgsc'/>  
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br />[http://cgsc2.biology.yale.edu/Strain.php?ID=109241 CGSC10960]<ref name='LIB:cgsc'/>  
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''&#916;ampC777::kan''
''ampC777(del)::kan''
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ampC
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Resistant to
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ampicillin resistance
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PMID:4945191
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|-
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ampC
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Gene duplication in the ampC gene region
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Resistant to
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Ampicillin-hyperresistant mutants of Ecoli K12 with  multiple gene duplications in the ampC gene region overproduced at least six proteins during anaerobic growth. All but two of the proteins were also overproduced during aerobic growth.
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PMID:391567
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''ampA1''
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Resistant to
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Resistant to Penicillins
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PMID:391567
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Referenced At: PMID:334718 & PMID:4904235


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===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
<protect><!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.18865.V4e04b7496eaa3-->
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="V4e04b7496eaa3"  class=" tableEdit Genetic_interaction_table dataTable" 
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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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{|   id="J46aa086e98292"  class=" tableEdit Gene_resource_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="J46aa086e98292"  class=" tableEdit Gene_resource_table"   
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!|Resource!!Resource Type!!Source!!Notes/Reference
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Primer 2:CCtTGTAGAGCGTTAAGAATCTG  
Primer 2:CCtTGTAGAGCGTTAAGAATCTG  
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[[:Category:Kohara_Phage:1D4|1D4]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=650 Genobase]
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PMID:3038334
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[[:Category:Kohara_Phage:3H6|3H6]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=651 Genobase]
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PMID:3038334
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="F46aa086f466cf"  class=" tableEdit Gene_accessions_table"   
|- {{table_heading_style}}
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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=EG10040 EcoCyc:EG10040]
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|-
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[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
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[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0038 EchoBASE:EB0038]
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|-
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[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
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[http://chase.ou.edu/macro/searchlink.php?bnum=b4150 EcoliGenExpDB:b4150]
EcoCyc:EG10040
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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]])
[[EcoGene]]
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[http://BioCyc.org/ECOL199310/new-image?object=C5238 ECOL199310CYC:C5238]
EcoGene:EG10040
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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]])
[[RegulonDB]]
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[http://ecogene.org/geneinfo.php?eg_id=EG10040 EcoGene:EG10040]
RegulonDB:ECK120000036
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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]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
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[http://BioCyc.org/ECOO157/new-image?object=AMPC ECOO157CYC:AMPC]
[http://www.ncbi.nlm.nih.gov/gene?term=948669 GeneID:948669]
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Escherichia coli str. K-12 substr. MG1655
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[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
[[EchoBASE]]
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[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/1033 CGSC:1033]
EchoBASE:EB0038
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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]])
[[ASAP]]
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[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0013592&formSubmitReturn=1 ASAP:ABE-0013592]
ASAP:ABE-0013592
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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Latest revision as of 20:51, 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

ampC

Mnemonic

Ampicillin

Synonyms

ECK4146, b4150, JW4111, ampA[1], ampA

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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

94.31 minutes, 94.31 minutes 

MG1655: 4376967..4375834
<gbrowseImage> name=NC_000913:4375834..4376967 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4357655..4356522
<gbrowseImage> name=NC_012967:4356522..4357655 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4314569..4315702
<gbrowseImage> name=NC_012759:4314569..4315702 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4383624..4382491
<gbrowseImage> name=NC_007779:4382491..4383624 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4477329..4476196
<gbrowseImage> name=NC_010473:4476196..4477329 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

4375837

Edman degradation

PMID:6795623[2]


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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

ampCS80D,E,G

S80D,E,G

Loss of activity

seeded from UniProt:P00811

ampCK83Q,T

K83Q,T

Lowers activity more than 1000- fold and increases protein stability

seeded from UniProt:P00811

ampCK331A

K331A

Lowers activity more than 1000- fold

seeded from UniProt:P00811

ampCN168D,H

N168D,H

Lowers activity more than 1000- fold

seeded from UniProt:P00811

ampCY166E

Y166E

Lowers activity more than 1000- fold

seeded from UniProt:P00811

ampC(del) (Keio:JW4111)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC10960[4]

ampC12

CGSC:10039

ampC11

CGSC:11804

ampC3

CGSC:11809

ampC777(del)::kan

PMID:16738554[3]

CGSC:99998

ampC

Resistant to

ampicillin resistance

PMID:4945191[5]

ampC

Gene duplication in the ampC gene region

Resistant to

Ampicillin-hyperresistant mutants of Ecoli K12 with multiple gene duplications in the ampC gene region overproduced at least six proteins during anaerobic growth. All but two of the proteins were also overproduced during aerobic growth.

PMID:391567[6]

ampA1

Resistant to

Resistant to Penicillins

PMID:391567[6]

Referenced At: PMID:334718[7] & PMID:4904235[8]

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Notes

Genetic Interactions

[back to top]



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

Genetic Resources

[back to top]


See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW4111

Plasmid clone

Shigen

PMID:16769691[9]

Status:Clone OK

Primer 1:GCCTTCAAAACGACGCTCTGCGC

Primer 2:CCtTGTAGAGCGTTAAGAATCTG

1D4

Kohara Phage

Genobase

PMID:3038334[10]

3H6

Kohara Phage

Genobase

PMID:3038334[10]

cadB2231::Tn10

Linked marker

CAG18488 = CGSC7479[4]

est. P1 cotransduction: 50% [11]
Synonyms:zjd-2231::Tn10

cycA30::Tn10

Linked marker

CAG12073 = CGSC7482[4]

est. P1 cotransduction: 10% [11]

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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:EG10040

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10040

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000036

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948669

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0038

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013592

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

[back to top]



<protect>

References

[back to top]


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. ↑ Jaurin, B & Grundström, T (1981) ampC cephalosporinase of Escherichia coli K-12 has a different evolutionary origin from that of beta-lactamases of the penicillinase type. Proc. Natl. Acad. Sci. U.S.A. 78 4897-901 PubMed
  3. ↑ 3.0 3.1 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
  4. ↑ 4.0 4.1 4.2 CGSC: The Coli Genetics Stock Center
  5. ↑ Eriksson-Grennberg, KR et al. (1971) Resistance of Escherichia coli to penicillins. IX. Genetics and physiology of class II ampicillin-resistant mutants that are galactose negative or sensitive to bacteriophage C21, or both. J. Bacteriol. 108 1210-23 PubMed
  6. ↑ 6.0 6.1 Cole, ST & Guest, JR (1979) Production of a soluble form of fumarate reductase by multiple gene duplication in Escherichia coli K12. Eur. J. Biochem. 102 65-71 PubMed
  7. ↑ Normark, S & Burman, LG (1977) Resistance of Escherichia coli to penicillins: fine-structure mapping and dominance of chromosomal beta-lactamase mutations. J. Bacteriol. 132 1-7 PubMed
  8. ↑ Held, WA & Smith, OH (1970) Mechanism of 3-methylanthranilic acid derepression of the tryptophan operon in Escherichia coli. J. Bacteriol. 101 209-17 PubMed
  9. ↑ 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
  10. ↑ 10.0 10.1 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
  11. ↑ 11.0 11.1 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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