polB:Gene

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Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

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Nomenclature

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Standard name

polB

Mnemonic

Polymerase

Synonyms

ECK0061, b0060, JW0059, dinA[1], dinA

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Notes

Location(s) and DNA Sequence

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Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

1.37 minutes 

MG1655: 65780..63429
<gbrowseImage> name=NC_000913:63429..65780 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 68584..66233
<gbrowseImage> name=NC_012967:66233..68584 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 63429..65780
<gbrowseImage> name=NC_012759:63429..65780 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 65780..63429
<gbrowseImage> name=NC_007779:63429..65780 source=W3110 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

63432

Edman degradation

PMID:2034216[2]
PMID:2217198[3]


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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

polB(del) (Keio:JW0059)

deletion

deletion

PMID:16738554[4]

Shigen

polBG401D

G401D

(in allele POLB100)

Strain variation; seeded from UniProt:P21189

polB100

CGSC:6869

(araD-polB)(del)::omega

araD-polB was deleted and replaced with a omega cassette

rate of DNA replication

There was a significant delay in the resumption of replication.

PMID:10430924[5]

See Figure 2.

polB(del)umuDC(del)

Deletion of araD-polB operon and replaced with omega cassette. Deletion of umuDC operon and replaced with chloramephenicol acetylransferase gene (cat)

Sensitivity to

Sensitivity toward UV radiation was increased by 2 to 3 fold.

PMID:10430924[5]

See Figure 1.

polB(del)umuDC(del)

Deletion of araD-polB operon and replaced with omega cassette. Deletion of umuDC operon and replaced with chloramephenicol acetylransferase gene (cat)

rate of replication

There was a significant delay in the resumption of DNA replication after exposure to UV radiation.

PMID:10430924[5]

See Figure 3.

dnaE486 (araD-polB)(del)::omega

Deletion of araD-polB operon and replaced with omega cassette. Fusion with rapid stop allele dnaE846

Sensitivity to

There is a significant delay in the resumption of DNA replication after exposure to UV radiation at 30 C

PMID:10430924[5]

See figure 4 B.

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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

JW0059

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCGCGCAGGCAGGTTTTATCTT

Primer 2:CCAAATAGCCCAAGTTGCCCGGT

8D2

Kohara Phage

Genobase

PMID:3038334[7]

5H5

Kohara Phage

Genobase

PMID:3038334[7]

carB96::Tn10

Linked marker

CAG12093 = CGSC7322[8]

est. P1 cotransduction: 30% [9]
Synonyms:car-96::Tn10

leuO3051::Tn10

Linked marker

CAG12095 = CGSC7324[8]

est. P1 cotransduction: 48% [9]
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).

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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:EG10747

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10747

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000738

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:944779

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0740

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000202

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. Iwasaki, H et al. (1991) Escherichia coli DNA polymerase II is homologous to alpha-like DNA polymerases. Mol. Gen. Genet. 226 24-33 PubMed
  3. Bonner, CA et al. (1990) DNA polymerase II is encoded by the DNA damage-inducible dinA gene of Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 87 7663-7 PubMed
  4. 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
  5. 5.0 5.1 5.2 5.3 Rangarajan, S et al. (1999) A phenotype for enigmatic DNA polymerase II: a pivotal role for pol II in replication restart in UV-irradiated Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 96 9224-9 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).

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