Title
Sequence-Dependent Upstream DNA-RNA Polymerase Interactions in the Open Complex with λP<inf>R</inf> and λP<inf>RM</inf> Promoters and Implications for the Mechanism of Promoter Interference
Date Issued
23 January 2009
Access level
open access
Resource Type
journal article
Author(s)
University of California
Publisher(s)
Academic Press
Abstract
Upstream interactions of Escherichia coli RNA polymerase (RNAP) in an open promoter complex (RPo) formed at the PR and PRM promoters of bacteriophage λ have been studied by atomic force microscopy. We demonstrate that the previously described 30-nm DNA compaction observed upon RPo formation at PR [Rivetti, C., Guthold, M. & Bustamante, C. (1999). Wrapping of DNA around the E. coli RNA polymerase open promoter complex. EMBO J., 18, 4464-4475.] is a consequence of the specific interaction of the RNAP with two AT-rich sequence determinants positioned from - 36 to - 59 and from - 80 to - 100. Likewise, RPos formed at PRM showed a specific contact between RNAP and the upstream DNA sequence. We further demonstrate that this interaction, which results in DNA wrapping against the polymerase surface, is mediated by the C-terminal domains of α-subunits (carboxy-terminal domain). Substitution of these AT-rich sequences with heterologous DNA reduces DNA wrapping but has only a small effect on the activity of the PR promoter. We find, however, that the frequency of DNA templates with both PR and PRM occupied by an RNAP significantly increases upon loss of DNA wrapping. These results suggest that α carboxy-terminal domain interactions with upstream DNA can also play a role in regulating the expression of closely spaced promoters. Finally, a model for a possible mechanism of promoter interference between PR and PRM is proposed. © 2008 Elsevier Ltd. All rights reserved.
Start page
748
End page
760
Volume
385
Issue
3
Language
English
OCDE Knowledge area
Genética, Herencia
Bioquímica, Biología molecular
Subjects
Scopus EID
2-s2.0-58149193190
PubMed ID
Source
Journal of Molecular Biology
ISSN of the container
00222836
Sponsor(s)
National Institute of General Medical Sciences R37GM037048 NIGMS
Sources of information:
Directorio de Producción Científica
Scopus