dnaX:Gene: Difference between revisions

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Table edited by Azweifel via TableEdit
Automated update of mnemonics from EcoGene.
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!align=left |Standard name
!align=left {{table_heading_style}} |Standard name
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''dnaX''  
''dnaX''
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!align=left |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
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DNA
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!align=left |Synonyms
!align=left {{table_heading_style}} |Synonyms
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''ECK0464, b0470, JW0459, dnaZ''<ref name='LIB:Riley_2006'/>
''ECK0464, b0470, JW0459, dnaZ''<ref name='LIB:Riley_2006'/>
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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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!|Feature type!!Location!!Description
!|Feature type!!Location!!Description


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{| {{Prettytable}}  id="Y46a9b1775c6d3"  class=" tableEdit Gene_allele_table dataTable"   
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!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
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!|Resource!!Resource Type!!Source!!Notes/Reference
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!|Database!!Accession!!Notes
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!|Name!!URL!!Comments
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Revision as of 21:06, 25 February 2010

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Alleles and Phenotypes 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

dnaX

Mnemonic

DNA

Synonyms

ECK0464, b0470, JW0459, dnaZ[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

10.59 minutes 

MG1655: 491316..493247
gbrowse_img.php?coord=491316..493247&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 464159..466090
gbrowse_img.php?coord=464159..466090&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 491316..493247
gbrowse_img.php?coord=491316..493247&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 430647..432578
gbrowse_img.php?coord=430647..432578&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

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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 Location Description
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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

dnaX36

E601K

Growth Phenotype

ts growth. Fast stop DNA replication arrest at 44°

PMID:16430690[2] PMID:8376347[3]

Affects Tau but not Gamma

dnaX36

Other

Weak mutator in mismatch repair deficient strain

PMID:16430690[2]

dnaX0

CGSC:10600

dnaX2016

G118D

Growth Phenotype

Ts for replication and growth

PMID:8376347[3]

CGSC:10601

dnaX36(ts)

temperature sensitive

CGSC:10704

dnaXE145A

E145A

failure to suppress parE10 when overexpressed

PMID:12535532[4]

dnaX(Ts)

G118D

Growth Phenotype

temperature sensitive for replication and growth

PMID:12775696[5]

phenotype suppressed by mutaions in DnaA

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Notes

Template:font-size[6]

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

JW0459

Plasmid clone

Shigen

PMID:16769691[7]

Status:Clone OK

Primer 1:GCCAGTTATCAGGTCTTAGCCCG

Primer 2:CCAATGGGGCGGATACTTTCTTC

zaj-3054::Tn10

Linked marker

CAG12017 = CGSC7339[8]

est. P1 cotransduction: 28% [9]
Synonyms:zba-3054::Tn10

gsk-3055::Tn10

Linked marker

CAG12154 = CGSC7341[8]

est. P1 cotransduction: 72% [9]
Synonyms:zbb-30-55::TnlO, zba-3055::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 (EcoliWiki Page)

EcoCyc:EG10245

EchoBASE (EcoliWiki Page)

EchoBASE:EB0241

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0470

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0589

EcoGene (EcoliWiki Page)

EcoGene:EG10245

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:DNAX

CGSC (EcoliWiki Page)

CGSC:838

ASAP (EcoliWikiPage)

ASAP:ABE-0001633


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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 Pham, PT et al. (2006) Mutator mutants of Escherichia coli carrying a defect in the DNA polymerase III tau subunit. Mol. Microbiol. 59 1149-61 PubMed
  3. ↑ 3.0 3.1 Blinkova, A et al. (1993) The Escherichia coli DNA polymerase III holoenzyme contains both products of the dnaX gene, tau and gamma, but only tau is essential. J. Bacteriol. 175 6018-27 PubMed
  4. ↑ Espeli, O et al. (2003) Temporal regulation of topoisomerase IV activity in E. coli. Mol. Cell 11 189-201 PubMed
  5. ↑ Blinkova, A et al. (2003) Suppression of temperature-sensitive chromosome replication of an Escherichia coli dnaX(Ts) mutant by reduction of initiation efficiency. J. Bacteriol. 185 3583-95 PubMed
  6. ↑ Sevastopoulos, CG et al. (1977) Large-scale automated isolation of Escherichia coli mutants with thermosensitive DNA replication. Proc. Natl. Acad. Sci. U.S.A. 74 3485-9 PubMed
  7. ↑ 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
  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).

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