mutM:Gene: Difference between revisions

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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=572 Genobase]
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=572 Genobase]
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PMID:3038334
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[[:Category:Kohara_Phage:4D2|4D2]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=573 Genobase]
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PMID:3038334  
PMID:3038334  
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est. P1 cotransduction: 50% <ref name='LIB:Nichols_linked_Tn'/>  
est. P1 cotransduction: 50% <ref name='LIB:Nichols_linked_Tn'/>  
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[[:Category:Kohara_Phage:4D2|4D2]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=573 Genobase]
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PMID:3038334


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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10329 EcoCyc:EG10329]
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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=EB0325 EchoBASE:EB0325]
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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=b3635 EcoliGenExpDB:b3635]
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[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])
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[http://BioCyc.org/ECOL199310/new-image?object=C4459 ECOL199310CYC:C4459]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
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[http://ecogene.org/geneinfo.php?eg_id=EG10329 EcoGene:EG10329]
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[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
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[http://BioCyc.org/ECOO157/new-image?object=MUTM ECOO157CYC:MUTM]
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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/18133 CGSC:18133]
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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=0011877&formSubmitReturn=1 ASAP:ABE-0011877]
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Revision as of 20:48, 21 September 2011

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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

mutM

Mnemonic

Mutator

Synonyms

ECK3625, b3635, JW3610, fpg[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

82.08 minutes 

MG1655: 3809175..3808366
<gbrowseImage> name=NC_000913:3808366..3809175 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3749507..3748698
<gbrowseImage> name=NC_012967:3748698..3749507 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3696692..3697501
<gbrowseImage> name=NC_012759:3696692..3697501 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3829263..3830072
<gbrowseImage> name=AC_000091:3829263..3830072 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3906752..3905943
<gbrowseImage> name=NC_010473:3905943..3906752 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

3808369

Edman degradation

PMID:3319582[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

ΔmutM (Keio:JW3610)

deletion

deletion

PMID:16738554[3]

Shigen

mutM::Tn5KAN-I-SceI (FB21352)

Insertion at nt 312 in Plus orientation

PMID:15262929[4]

E. coli Genome Project:FB21352

contains pKD46

mutM::Tn5KAN-I-SceI (FB21353)

Insertion at nt 312 in Plus orientation

PMID:15262929[4]

E. coli Genome Project:FB21353

does not contain pKD46

mutMK218T

K218T

Slight increase of substrate affinity and decrease of activity

seeded from UniProt:P05523

mutME174Q

E174Q

Strong decrease of glycosylase activity; slight decrease of AP lyase activity

seeded from UniProt:P05523

mutME3Q

E3Q

Strong decrease of glycosylase activity; slight decrease of AP lyase activity

seeded from UniProt:P05523

mutME6Q

E6Q

Decrease of glycosylase activity; no effect on AP lyase activity

seeded from UniProt:P05523

mutMH90A

H90A

Increase of substrate affinity and decrease of activity

seeded from UniProt:P05523

mutMD107N

D107N

No effect on glycosylase and AP lyase activity

seeded from UniProt:P05523

mutMR109A

R109A

Over 100-fold decrease of activity

seeded from UniProt:P05523

mutMR110A

R110A

Over 100-fold increase of substrate affinity and decrease of activity

seeded from UniProt:P05523

mutME132Q

E132Q

Decrease of glycosylase activity; slight decrease of AP lyase activity

seeded from UniProt:P05523

mutMD160N

D160N

No effect on glycosylase and AP lyase activity

seeded from UniProt:P05523

mutM102::kan

PMID:8676878[5]

CGSC:67990

mutM103::mini-Tn10

PMID:8676878[5]

CGSC:67993


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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

JW3610

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCCCTGAATTACCCGAAGTTGA

Primer 2:CCtTTCTGGCACTGCCGACAATA

2A6

Kohara Phage

Genobase

PMID:3038334[7]

4D2

Kohara Phage

Genobase

PMID:3038334[7]

zhg-50::Tn10

Linked marker

CAG18450 = CGSC7450[8]

est. P1 cotransduction: % [9]
Synonyms:zhf-50::Tn10, zhf-5::Tn10

zic-4901::Tn10

Linked marker

CAG18492 = CGSC7457[8]

est. P1 cotransduction: 50% [9]

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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
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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. ↑ Boiteux, S et al. (1987) Formamidopyrimidine-DNA glycosylase of Escherichia coli: cloning and sequencing of the fpg structural gene and overproduction of the protein. EMBO J. 6 3177-83 PubMed
  3. ↑ 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 Kang, Y et al. (2004) Systematic mutagenesis of the Escherichia coli genome. J. Bacteriol. 186 4921-30 PubMed
  5. ↑ 5.0 5.1 Bridges, BA et al. (1996) Effect of mutY and mutM/fpg-1 mutations on starvation-associated mutation in Escherichia coli: implications for the role of 7,8-dihydro-8-oxoguanine. Mol. Gen. Genet. 251 352-7 PubMed
  6. ↑ 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
  7. ↑ 7.0 7.1 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
  8. ↑ 8.0 8.1 CGSC: The Coli Genetics Stock Center
  9. ↑ 9.0 9.1 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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