mutL: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="M46aa08ef36efd" class=" tableEdit Gene_nomenclature_table"


|-
|-
!align=left {{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Standard name
||
||
''mutL''  
''mutL''
|-
|-
!align=left {{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
||
||
 
Mutator
|-
|-
!align=left {{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
||
||
''ECK4166, b4170, JW4128''<ref name='LIB:Riley_2006'/>
''ECK4166, b4170, JW4128''<ref name='LIB:Riley_2006'/>, JW4128''


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*  
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****************************************************************************************** -->{{Gene_location_help}}
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="U46aa08efba5e4"  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
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94.74 minutes&nbsp;
94.74 minutes&nbsp;
|
|
MG1655: 4395435..4397282<br />{{GBrowseFigureByCoord|4395435|4397282|ecoli|MG1655}}
MG1655: 4395435..4397282<br /><gbrowseImage>
name=NC_000913:4395435..4397282
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11281 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11281 EcoCyc]
{{GBrowseLink|ecoli|NC_000913|4394435|4398282|GBrowse(MG1655)}}
{{GBrowseLink|MG1655|NC_000913|4394435|4398282|GBrowse(MG1655)}}
   
   
|
|
{{GBrowseFastaLink|ecoli|NC_000913|4395435|4397282|FASTA Dump}}
{{GBrowseFastaLink|MG1655|NC_000913|4395435|4397282|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG11281 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG11281 EcoCyc Sequence Dump]  
|-
|
[[REL606]]
|
|
NC_012967: 4375567..4377414<br /><gbrowseImage>
name=NC_012967:4375567..4377414
source=REL606
preset=GeneLocation
</gbrowseImage>
|
{{GBrowseLink|REL606|NC_012967|4375567|4377414|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|4375567|4377414|FASTA Dump}}
|-
|
[[BW2952]]
|
|
NC_012759: 4334170..4336017<br /><gbrowseImage>
name=NC_012759:4334170..4336017
source=BW2952
preset=GeneLocation
</gbrowseImage>
|
{{GBrowseLink|BW2952|NC_012759|4334170|4336017|GBrowse (BW2952)}}
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{{GBrowseFastaLink|BW2952|NC_012759|4334170|4336017|FASTA Dump}}
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&nbsp;
&nbsp;
|
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W3110: 4402092..4403939<br />{{GBrowseFigureByCoord|4402092|4403939|ecoli_W3110|W3110}}
W3110: 4402092..4403939<br /><gbrowseImage>
name=NC_007779:4402092..4403939
source=W3110
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|ecoli_W3110|AC_000091|4401092|4404939|GBrowse(W3110)}}  
{{GBrowseLink|W3110|NC_007779|4401092|4404939|GBrowse(W3110)}}  
|
|
{{GBrowseFastaLink|ecoli_W3110|AC_000091|4402092|4403939|FASTA Dump}}  
{{GBrowseFastaLink|W3110|NC_007779|4402092|4403939|FASTA Dump}}  
|-  
|-  
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|
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DH10B: 4495797..4497644<br />{{GBrowseFigureByCoord|4495797|4497644|ecoli_DH10B|DH10B}}
DH10B: 4495797..4497644<br /><gbrowseImage>
name=NC_010473:4495797..4497644
source=DH10B
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|ecoli_DH10B|NC_010473|4492103|4501338|GBrowse(DH10B)}}
{{GBrowseLink|DH10B|NC_010473|4492103|4501338|GBrowse(DH10B)}}
|
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{{GBrowseFastaLink|ecoli_DH10B|NC_010473|4492103|4501338|FASTA Dump}}  
{{GBrowseFastaLink|DH10B|NC_010473|4492103|4501338|FASTA Dump}}  


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*  
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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;"   
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|- {{table_heading_style}}
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!|Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes


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*  
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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="B46aa08f0ce39c"  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
|-  
|-  
|
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&Delta;mutL (Keio:JW4128)
''mutL(del)'' (Keio:JW4128)
|
|
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=109252 CGSC10971]<ref name='LIB:cgsc'/>  
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br />[http://cgsc2.biology.yale.edu/Strain.php?ID=109252 CGSC10971]<ref name='LIB:cgsc'/>  
|
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|-  
|-  
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''&#916;mutL720::kan''
''mutL720(del)::kan''
|
|


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|
|
   
   
|-
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''mutL''::KmMlu
|
GC To AT and AT to GC transition Mutation
|
|
Mutation Frequency
|
Insertion caused GC to AT and AT to GC transition mutation to increase. Table 2.
|
PMID:1999389
|
|
Strain: NU1521 (AT to GC)
Strain: NU1509 (GC to AT)
|-
|
''mutL'':omega(Km<sup>r</sup> OR Cm<sup>r</sup>);''Bsa''AI
|
|
|
Auxotrophies
|
The polar omega cassettes blocked ''mutL-miaA'' transcription and caused the full-lengthened protected species to disappear, Fig. 2 lanes 3 and 4.
|
PMID:7748952
|
|
Strains: TX2568 (Cm<sup>r</sup>) & TX2569 (Km<sup>r</sup>)
|-
|
''MutL(del)335N''
|
deletion of N terminus
|
|
excision activity
|
Truncation mutant was inefficient as wild type ''MutL'' in promoting the excision activity of ExoX. Interaction between MutL and ExoX was also reduced. figure 4. These data suggest that the 335 N-terminal amoni acids of MutL are essential for both the interaction and stimulation of ExoX.
|
PMID:20638361
|
|
|-
|
MutL-E29A
|


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replacement of Glutamic acid to Alanine at position 29.
|
DNA repair
|
mutant form of MutL is inactive in ATP hydrolysis but still has a physical interaction with RecA. Mutation had an inhibitory effect on RecA's ATPase activity, Figure 4B.
|
PMID:22001225
|
Parent Strain:MG1655
|
 
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===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
<protect><!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.18905.V4e04bfc86fbf3-->
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|- {{table_heading_style}}
!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
|- class="tableEdit_footer"
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===Notes===


==Genetic Resources==
==Genetic Resources==
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!|Resource!!Resource Type!!Source!!Notes/Reference
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Primer 2:CCtTCATCTTTCAGGGCTTTTAT  
Primer 2:CCtTCATCTTTCAGGGCTTTTAT  
|-
|
[[:Category:Kohara_Phage:3A1|3A1]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=652 Genobase]
|
PMID:3038334
|-  
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est. P1 cotransduction: 30% <ref name='LIB:Nichols_linked_Tn'/>  
est. P1 cotransduction: 30% <ref name='LIB:Nichols_linked_Tn'/>  


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|- {{table_heading_style}}
|- {{table_heading_style}}
!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
|
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG11281 EcoCyc:EG11281]
EcoCyc:EG11281
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
[[EcoGene]]
|
|
[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB1258 EchoBASE:EB1258]
EcoGene:EG11281
|
|
''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]]
|
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b4170 EcoliGenExpDB:b4170]
RegulonDB:ECK120001254
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
|
|
[http://BioCyc.org/ECOL199310/new-image?object=C5254 ECOL199310CYC:C5254]
[http://www.ncbi.nlm.nih.gov/gene?term=948691 GeneID:948691]
|
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG11281 EcoGene:EG11281]
EchoBASE:EB1258
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-  
|
[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
|
[http://BioCyc.org/ECOO157/new-image?object=MUTL ECOO157CYC:MUTL]
|
|-
|
[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
|
[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/470 CGSC:470]
|
|-  
|-  
|
|
[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
[[ASAP]]
|
|
[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0013655&formSubmitReturn=1 ASAP:ABE-0013655]
ASAP:ABE-0013655
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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[[Category:Genes in the ASKA clone collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:mut genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:mut genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

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

[back to top]


See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

mutL

Mnemonic

Mutator

Synonyms

ECK4166, b4170, JW4128[1], JW4128

edit table


Notes

Location(s) and DNA Sequence

[back to top]


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

94.74 minutes 

MG1655: 4395435..4397282
<gbrowseImage> name=NC_000913:4395435..4397282 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4375567..4377414
<gbrowseImage> name=NC_012967:4375567..4377414 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4334170..4336017
<gbrowseImage> name=NC_012759:4334170..4336017 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4402092..4403939
<gbrowseImage> name=NC_007779:4402092..4403939 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4495797..4497644
<gbrowseImage> name=NC_010473:4495797..4497644 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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Feature Type Strain Genomic Location Evidence Reference Notes
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Notes

Alleles and Phenotypes

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Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

mutL(del) (Keio:JW4128)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC10971[3]

mutL218::Tn10

CGSC:7799

mutL13

PMID:4919752[4]

CGSC:8030

mutL720(del)::kan

PMID:16738554[2]

CGSC:101974

mutL::KmMlu

GC To AT and AT to GC transition Mutation

Mutation Frequency

Insertion caused GC to AT and AT to GC transition mutation to increase. Table 2.

PMID:1999389[5]

Strain: NU1521 (AT to GC) Strain: NU1509 (GC to AT)

mutL:omega(Kmr OR Cmr);BsaAI

Auxotrophies

The polar omega cassettes blocked mutL-miaA transcription and caused the full-lengthened protected species to disappear, Fig. 2 lanes 3 and 4.

PMID:7748952[6]

Strains: TX2568 (Cmr) & TX2569 (Kmr)

MutL(del)335N

deletion of N terminus

excision activity

Truncation mutant was inefficient as wild type MutL in promoting the excision activity of ExoX. Interaction between MutL and ExoX was also reduced. figure 4. These data suggest that the 335 N-terminal amoni acids of MutL are essential for both the interaction and stimulation of ExoX.

PMID:20638361[7]

MutL-E29A

replacement of Glutamic acid to Alanine at position 29.

DNA repair

mutant form of MutL is inactive in ATP hydrolysis but still has a physical interaction with RecA. Mutation had an inhibitory effect on RecA's ATPase activity, Figure 4B.

PMID:22001225[8]

Parent Strain:MG1655


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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

JW4128

Plasmid clone

Shigen

PMID:16769691[9]

Status:Clone OK

Primer 1:GCCCCAATTCAGGTCTTACCGCC

Primer 2:CCtTCATCTTTCAGGGCTTTTAT

3A1

Kohara Phage

Genobase

PMID:3038334[10]

cadB2231::Tn10

Linked marker

CAG18488 = CGSC7479[3]

est. P1 cotransduction: 20% [11]
Synonyms:zjd-2231::Tn10

cycA30::Tn10

Linked marker

CAG12073 = CGSC7482[3]

est. P1 cotransduction: 30% [11]

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Notes

Accessions in Other Databases

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Database Accession Notes

EcoCyc

EcoCyc:EG11281

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11281

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001254

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948691

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1258

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013655

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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. ↑ Liberfarb, RM & Bryson, V (1970) Isolation, characterization, and genetic analysis of mutator genes in Escherichia coli B and K-12. J. Bacteriol. 104 363-75 PubMed
  5. ↑ Connolly, DM & Winkler, ME (1991) Structure of Escherichia coli K-12 miaA and characterization of the mutator phenotype caused by miaA insertion mutations. J. Bacteriol. 173 1711-21 PubMed
  6. ↑ Tsui, HC & Winkler, ME (1994) Transcriptional patterns of the mutL-miaA superoperon of Escherichia coli K-12 suggest a model for posttranscriptional regulation. Biochimie 76 1168-77 PubMed
  7. ↑ Cheng, F et al. (2010) Functional interaction between MutL and 3'-5' exonuclease X in Escherichia coli. Arch. Biochem. Biophys. 502 39-43 PubMed
  8. ↑ Zhang, M et al. (2012) MutL associates with Escherichia coli RecA and inhibits its ATPase activity. Arch. Biochem. Biophys. 517 98-103 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. ↑ 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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