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Literature DB >> 15509805

Functional role of extranucleosomal DNA and the entry site of the nucleosome in chromatin remodeling by ISW2.

Martin Zofall¹, Jim Persinger, Blaine Bartholomew.

Abstract

A minimal amount of extranucleosomal DNA was required for nucleosome mobilization by ISW2 as shown by using a photochemical histone mapping approach to analyze nucleosome movement on a set of nucleosomes with varied lengths of extranucleosomal DNA. ISW2 was ineffective in repositioning or mobilizing nucleosomes with <or=20 bp of extranucleosomal DNA. In addition, ISW2 was able to slide nucleosomes to within only 10 to 13 bp of the edge of DNA fragments. The nucleosome mobilization was promoted by extranucleosomal single-stranded DNA with modest strand preference. Gaps (10 bp) just inside the nucleosome and in the extranucleosomal DNA showed that the transfer of torsional strain (twist) into the nucleosomal DNA region was not required for mobilizing nucleosomes. However, indications are that the extranucleosomal DNA immediately adjacent to the nucleosome has an important role in the initial stage of nucleosome movement by ISW2.

Mesh：

Substances：

Year: 2004 PMID： 15509805 PMCID： PMC525492 DOI： 10.1128/MCB.24.22.10047-10057.2004

Source DB: PubMed Journal: Mol Cell Biol ISSN： 0270-7306 Impact factor: 4.272

34 in total

1. ISWI is an ATP-dependent nucleosome remodeling factor.

Authors: D F Corona; G Längst; C R Clapier; E J Bonte; S Ferrari; J W Tamkun; P B Becker
Journal: Mol Cell Date: 1999-02 Impact factor: 17.970

2. Chromatin-remodelling factor CHRAC contains the ATPases ISWI and topoisomerase II.

Authors: P D Varga-Weisz; M Wilm; E Bonte; K Dumas; M Mann; P B Becker
Journal: Nature Date: 1997-08-07 Impact factor: 49.962

3. New DNA sequence rules for high affinity binding to histone octamer and sequence-directed nucleosome positioning.

Authors: P T Lowary; J Widom
Journal: J Mol Biol Date: 1998-02-13 Impact factor: 5.469

4. ACF, an ISWI-containing and ATP-utilizing chromatin assembly and remodeling factor.

Authors: T Ito; M Bulger; M J Pazin; R Kobayashi; J T Kadonaga
Journal: Cell Date: 1997-07-11 Impact factor: 41.582

5. ATP-dependent histone octamer sliding mediated by the chromatin remodeling complex NURF.

Authors: A Hamiche; R Sandaltzopoulos; D A Gdula; C Wu
Journal: Cell Date: 1999-06-25 Impact factor: 41.582

6. Characterization of the imitation switch subfamily of ATP-dependent chromatin-remodeling factors in Saccharomyces cerevisiae.

Authors: T Tsukiyama; J Palmer; C C Landel; J Shiloach; C Wu
Journal: Genes Dev Date: 1999-03-15 Impact factor: 11.361

7. ACF consists of two subunits, Acf1 and ISWI, that function cooperatively in the ATP-dependent catalysis of chromatin assembly.

Authors: T Ito; M E Levenstein; D V Fyodorov; A K Kutach; R Kobayashi; J T Kadonaga
Journal: Genes Dev Date: 1999-06-15 Impact factor: 11.361

8. RSC, an essential, abundant chromatin-remodeling complex.

Authors: B R Cairns; Y Lorch; Y Li; M Zhang; L Lacomis; H Erdjument-Bromage; P Tempst; J Du; B Laurent; R D Kornberg
Journal: Cell Date: 1996-12-27 Impact factor: 41.582

9. ISWI, a member of the SWI2/SNF2 ATPase family, encodes the 140 kDa subunit of the nucleosome remodeling factor.

Authors: T Tsukiyama; C Daniel; J Tamkun; C Wu
Journal: Cell Date: 1995-12-15 Impact factor: 41.582

10. The Drosophila snr1 and brm proteins are related to yeast SWI/SNF proteins and are components of a large protein complex.

Authors: A K Dingwall; S J Beek; C M McCallum; J W Tamkun; G V Kalpana; S P Goff; M P Scott
Journal: Mol Biol Cell Date: 1995-07 Impact factor: 4.138

42 in total

Functional role of extranucleosomal DNA and the entry site of the nucleosome in chromatin remodeling by ISW2.

1. ISWI is an ATP-dependent nucleosome remodeling factor.

2. Chromatin-remodelling factor CHRAC contains the ATPases ISWI and topoisomerase II.

3. New DNA sequence rules for high affinity binding to histone octamer and sequence-directed nucleosome positioning.

4. ACF, an ISWI-containing and ATP-utilizing chromatin assembly and remodeling factor.

5. ATP-dependent histone octamer sliding mediated by the chromatin remodeling complex NURF.

6. Characterization of the imitation switch subfamily of ATP-dependent chromatin-remodeling factors in Saccharomyces cerevisiae.

7. ACF consists of two subunits, Acf1 and ISWI, that function cooperatively in the ATP-dependent catalysis of chromatin assembly.

8. RSC, an essential, abundant chromatin-remodeling complex.

9. ISWI, a member of the SWI2/SNF2 ATPase family, encodes the 140 kDa subunit of the nucleosome remodeling factor.

10. The Drosophila snr1 and brm proteins are related to yeast SWI/SNF proteins and are components of a large protein complex.

Review 1. Epigenetic landscape of pluripotent stem cells.

2. The INO80 ATP-dependent chromatin remodeling complex is a nucleosome spacing factor.

3. Genome-wide nucleosome specificity and directionality of chromatin remodelers.

4. Regulation of ISW2 by concerted action of histone H4 tail and extranucleosomal DNA.

5. ACF catalyses chromatosome movements in chromatin fibres.

6. Domain architecture of the catalytic subunit in the ISW2-nucleosome complex.

7. Dependency of ISW1a chromatin remodeling on extranucleosomal DNA.

8. SET domains of histone methyltransferases recognize ISWI-remodeled nucleosomal species.

Review 9. ISWI chromatin remodeling: one primary actor or a coordinated effort?

Review 10. Mechanisms of action and regulation of ATP-dependent chromatin-remodelling complexes.