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PMID: 12907708 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Identification and analysis of 'extended -10' promoters in Escherichia coli.

Nucleic acids research ·Vol. 31 ·No. 16 ·2003-08-15 ·Pages 4689-95

Mitchell JE, Zheng D, Busby SJ, Minchin SD

Abstract

We have compiled and aligned the DNA sequences of 554 promoter regions from Escherichia coli and analysed the alignment for sequence similarities. We have focused on the similarities and differences between promoters that either do or do not contain an extended -10 element. The distribution of -10 and -35 hexamer element sequences, the range of spacer lengths between these elements and the frequencies of occurrence of different nucleotides, dinucleotides and trinucleotides were investigated. Extended -10 promoters, which contain a 5'-TG-3' element, tend to have longer spacer lengths than promoters that do not. They also tend to show fewer matches to the consensus -35 hexamer element and contain short runs of T residues in the spacer region. We have shown experimentally that the extended -10 5'-TG-3' motif contributes to promoter activity at seven different promoters. The importance of the motif at different promoters is dependent on the sequence of other promoter elements.

MeSH Terms
3-Deoxy-7-Phosphoheptulonate Synthase/genetics Base Sequence Conserved Sequence/genetics DNA Gyrase/genetics Escherichia coli/genetics Gene Expression Regulation, Bacterial Lac Operon/genetics Molecular Sequence Data Mutagenesis, Site-Directed Mutation Porins/genetics Promoter Regions, Genetic/genetics Regulatory Sequences, Nucleic Acid/genetics Sequence Alignment Sequence Homology, Nucleic Acid Transcription, Genetic
Chemicals
OmpF protein Porins 3-Deoxy-7-Phosphoheptulonate Synthase DNA Gyrase
Authors & Affiliations
4 authors, click to expand affiliations / ORCID
Mitchell Jennie E
School of Biosciences, The University of Birmingham, Edgbaston, Birmingham B15 2TT, UK.
Zheng Dongling
Busby Stephen J W
Minchin Stephen D
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Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/gkg694
Published
2003-08-15
Pages
4689-95
Language
English
Region
England
NLM ID
0411011
PMCID
PMC169978
Subset
IM
Grants
Wellcome Trust · United Kingdom
External Links
PubMed source DOI: 10.1093/nar/gkg694 PMC Full Text View journal details
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