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PMID: 19935686 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, U.S. Gov't, Non-P.H.S.

Mechanism of chromatin remodeling and recovery during passage of RNA polymerase II.

Nature structural & molecular biology ·Vol. 16 ·No. 12 ·2009-12-00 ·Pages 1272-8

Kulaeva OI, Gaykalova DA, Pestov NA, Golovastov VV, Vassylyev DG, Artsimovitch I, Studitsky VM

Abstract

Transcription of eukaryotic genes by RNA polymerase II (Pol II) is typically accompanied by nucleosome survival and minimal exchange of histones H3 and H4. The mechanism of nucleosome survival and recovery of chromatin structure remains obscure. Here we show how transcription through chromatin by Pol II is uniquely coupled with nucleosome survival. Structural modeling and functional analysis of the intermediates of transcription through a nucleosome indicated that when Pol II approaches an area of strong DNA-histone interactions, a small intranucleosomal DNA loop (zero-size or Ø-loop) containing transcribing enzyme is formed. During formation of the Ø-loop, the recovery of DNA-histone interactions behind Pol II is tightly coupled with their disruption ahead of the enzyme. This coupling is a distinct feature of the Pol II-type mechanism that allows further transcription through the nucleosome, prevents nucleosome translocation and minimizes displacement of H3 and H4 histones from DNA during enzyme passage.

MeSH Terms
Chromatin Assembly and Disassembly DNA/metabolism Escherichia coli/physiology Escherichia coli Proteins/metabolism Histones/metabolism Nucleosomes/metabolism RNA Polymerase II/metabolism Transcription, Genetic
Chemicals
Escherichia coli Proteins Histones Nucleosomes DNA RNA Polymerase II
Authors & Affiliations
7 authors, click to expand affiliations / ORCID
Kulaeva Olga I
Department of Pharmacology, University of Medicine and Dentistry of New Jersey-Robert Wood Johnson Medical School, Piscataway, New Jersey, USA.
Gaykalova Daria A
Pestov Nikolai A
Golovastov Viktor V
Vassylyev Dmitry G
Artsimovitch Irina
Studitsky Vasily M
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Article Info
Journal
Nature structural & molecular biology
Abbr.
Nat Struct Mol Biol
ISSN
1545-9985
DOI
10.1038/nsmb.1689
Published
2009-12-00
Epub
2009-00-22
Pages
1272-8
Language
English
Region
United States
NLM ID
101186374
PMCID
PMC2919570
Subset
IM
Grants
NIGMS NIH HHS · R01 GM058650 · United States
NIGMS NIH HHS · R01 GM067153 · United States
NIGMS NIH HHS · GM58650 · United States
NIGMS NIH HHS · R01 GM074252 · United States
NIGMS NIH HHS · R01 GM074840 · United States
NIGMS NIH HHS · R01 GM067153-05 · United States
NIGMS NIH HHS · GM74840 · United States
NIGMS NIH HHS · GM067153 · United States
NIGMS NIH HHS · GM74252 · United States
External Links
PubMed source DOI: 10.1038/nsmb.1689 PMC Full Text View journal details
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