DNA sequence- and conformation-directed positioning of nucleosomes by chromatin-remodeling complexes
Chromatin-remodeling complexes can translocate nucleosomes along the DNA in an ATP-coupled reaction. This process is an important regulator of all DNA-dependent processes because it determines whether certain DNA sequences are found in regions between nucleosomes with increased accessibility for oth...
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| Veröffentlicht in: | Proceedings of the National Academy of Sciences - PNAS 2007-10, Vol.104 (40), p.15635-15640 |
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| container_title | Proceedings of the National Academy of Sciences - PNAS |
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| creator | Rippe, Karsten Schrader, Anna Riede, Philipp Strohner, Ralf Lehmann, Elisabeth Längst, Gernot |
| description | Chromatin-remodeling complexes can translocate nucleosomes along the DNA in an ATP-coupled reaction. This process is an important regulator of all DNA-dependent processes because it determines whether certain DNA sequences are found in regions between nucleosomes with increased accessibility for other factors or wrapped around the histone octamer complex. In a comparison of seven different chromatin-remodeling machines (ACF, ISWI, Snf2H, Chd1, Mi-2, Brg1, and NURF), it is demonstrated that these complexes can read out DNA sequence features to establish specific nucleosome-positioning patterns. For one of the remodelers, ACF, we identified a 40-bp DNA sequence element that directs nucleosome positioning. Furthermore, we show that nucleosome positioning by the remodelers ACF and Chd1 is determined by a reduced affinity to the end product of the translocation reaction. The results suggest that the linkage of differential remodeling activities with the intrinsic binding preferences of nucleosomes can result in establishing distinct chromatin structures that depend on the DNA sequence and define the DNA accessibility for other protein factors. |
| doi_str_mv | 10.1073/pnas.0702430104 |
| format | Article |
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This process is an important regulator of all DNA-dependent processes because it determines whether certain DNA sequences are found in regions between nucleosomes with increased accessibility for other factors or wrapped around the histone octamer complex. In a comparison of seven different chromatin-remodeling machines (ACF, ISWI, Snf2H, Chd1, Mi-2, Brg1, and NURF), it is demonstrated that these complexes can read out DNA sequence features to establish specific nucleosome-positioning patterns. For one of the remodelers, ACF, we identified a 40-bp DNA sequence element that directs nucleosome positioning. Furthermore, we show that nucleosome positioning by the remodelers ACF and Chd1 is determined by a reduced affinity to the end product of the translocation reaction. The results suggest that the linkage of differential remodeling activities with the intrinsic binding preferences of nucleosomes can result in establishing distinct chromatin structures that depend on the DNA sequence and define the DNA accessibility for other protein factors.</description><identifier>ISSN: 0027-8424</identifier><identifier>EISSN: 1091-6490</identifier><identifier>DOI: 10.1073/pnas.0702430104</identifier><identifier>PMID: 17893337</identifier><language>eng</language><publisher>United States: National Academy of Sciences</publisher><subject>Adenosine triphosphatase ; Adenosine triphosphatases ; Animals ; Base Sequence ; Biochemistry ; Biological Sciences ; Chromatin ; Chromatin - physiology ; Chromatin - ultrastructure ; Curvature ; Deoxyribonucleic acid ; DNA ; DNA - chemistry ; DNA - genetics ; Mammals ; Nucleic Acid Conformation ; Nucleic acids ; Nucleosomes ; Nucleosomes - physiology ; Nucleosomes - ultrastructure ; Nucleotide sequences ; Proteins ; Renovations ; Ribosomal DNA ; Yeasts</subject><ispartof>Proceedings of the National Academy of Sciences - PNAS, 2007-10, Vol.104 (40), p.15635-15640</ispartof><rights>Copyright 2007 The National Academy of Sciences of the United States of America</rights><rights>Copyright National Academy of Sciences Oct 2, 2007</rights><rights>2007 by The National Academy of Sciences of the USA 2007</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c554t-40d9ace559515449f4bab88514f5399aa760c7b5ceaca824fa038aa49a5545da3</citedby><cites>FETCH-LOGICAL-c554t-40d9ace559515449f4bab88514f5399aa760c7b5ceaca824fa038aa49a5545da3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Uhttp://www.pnas.org/content/104/40.cover.gif</thumbnail><linktopdf>$$Uhttps://www.jstor.org/stable/pdf/25449191$$EPDF$$P50$$Gjstor$$H</linktopdf><linktohtml>$$Uhttps://www.jstor.org/stable/25449191$$EHTML$$P50$$Gjstor$$H</linktohtml><link.rule.ids>230,314,727,780,784,803,885,27924,27925,53791,53793,58017,58250</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/17893337$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Rippe, Karsten</creatorcontrib><creatorcontrib>Schrader, Anna</creatorcontrib><creatorcontrib>Riede, Philipp</creatorcontrib><creatorcontrib>Strohner, Ralf</creatorcontrib><creatorcontrib>Lehmann, Elisabeth</creatorcontrib><creatorcontrib>Längst, Gernot</creatorcontrib><title>DNA sequence- and conformation-directed positioning of nucleosomes by chromatin-remodeling complexes</title><title>Proceedings of the National Academy of Sciences - PNAS</title><addtitle>Proc Natl Acad Sci U S A</addtitle><description>Chromatin-remodeling complexes can translocate nucleosomes along the DNA in an ATP-coupled reaction. This process is an important regulator of all DNA-dependent processes because it determines whether certain DNA sequences are found in regions between nucleosomes with increased accessibility for other factors or wrapped around the histone octamer complex. In a comparison of seven different chromatin-remodeling machines (ACF, ISWI, Snf2H, Chd1, Mi-2, Brg1, and NURF), it is demonstrated that these complexes can read out DNA sequence features to establish specific nucleosome-positioning patterns. For one of the remodelers, ACF, we identified a 40-bp DNA sequence element that directs nucleosome positioning. Furthermore, we show that nucleosome positioning by the remodelers ACF and Chd1 is determined by a reduced affinity to the end product of the translocation reaction. 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| subjects | Adenosine triphosphatase Adenosine triphosphatases Animals Base Sequence Biochemistry Biological Sciences Chromatin Chromatin - physiology Chromatin - ultrastructure Curvature Deoxyribonucleic acid DNA DNA - chemistry DNA - genetics Mammals Nucleic Acid Conformation Nucleic acids Nucleosomes Nucleosomes - physiology Nucleosomes - ultrastructure Nucleotide sequences Proteins Renovations Ribosomal DNA Yeasts |
| title | DNA sequence- and conformation-directed positioning of nucleosomes by chromatin-remodeling complexes |
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