Literature DB >> 1736292

A relationship between the helical twist of DNA and the ordered positioning of nucleosomes in all eukaryotic cells.

J Widom1.   

Abstract

A large number of measurements of nucleosome repeat lengths are analyzed and are found to exhibit preferential quantization to a set of values related by integral multiples of the helical twist of DNA. This implies that the nucleosomal DNA content is preferentially quantized, which in turn implies that linker DNA lengths are preferentially quantized. This study confirms and extends previous observations in the literature that had suggested, but not firmly established, that linker lengths might be quantized. The quantization of repeat lengths applies even for very long repeat lengths. This suggests a model for the origin of the quantization, in which the quantization arises from the requirements of higher-order chromatin structure.

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Year:  1992        PMID: 1736292      PMCID: PMC48392          DOI: 10.1073/pnas.89.3.1095

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  20 in total

1.  The salt dependence of chicken and yeast chromatin structure. Effects on internucleosomal organization and relation to active chromatin.

Authors:  D Lohr
Journal:  J Biol Chem       Date:  1986-07-25       Impact factor: 5.157

Review 2.  Structure of the 30 nm chromatin fiber.

Authors:  G Felsenfeld; J D McGhee
Journal:  Cell       Date:  1986-02-14       Impact factor: 41.582

3.  Nucleosome spacing in rat liver chromatin. A study with exonuclease III.

Authors:  F Strauss; A Prunell
Journal:  Nucleic Acids Res       Date:  1982-04-10       Impact factor: 16.971

4.  Energetics of DNA twisting. I. Relation between twist and cyclization probability.

Authors:  D Shore; R L Baldwin
Journal:  J Mol Biol       Date:  1983-11-15       Impact factor: 5.469

5.  Alignment of nucleosomes along DNA and organization of spacer DNA in Drosophila chromatin.

Authors:  V L Karpov; S G Bavykin; O V Preobrazhenskaya; A V Belyavsky; A D Mirzabekov
Journal:  Nucleic Acids Res       Date:  1982-07-24       Impact factor: 16.971

6.  Variable center to center distance of nucleosomes in chromatin.

Authors:  A Prunell; R D Kornberg
Journal:  J Mol Biol       Date:  1982-01-25       Impact factor: 5.469

7.  Structure of the nucleosome core particle at 7 A resolution.

Authors:  T J Richmond; J T Finch; B Rushton; D Rhodes; A Klug
Journal:  Nature       Date:  1984 Oct 11-17       Impact factor: 49.962

8.  Structure of the 300A chromatin filament: X-ray diffraction from oriented samples.

Authors:  J Widom; A Klug
Journal:  Cell       Date:  1985-11       Impact factor: 41.582

9.  Structural features of a phased nucleosome core particle.

Authors:  R T Simpson; D W Stafford
Journal:  Proc Natl Acad Sci U S A       Date:  1983-01       Impact factor: 11.205

10.  Structure of nucleosomes and organization of internucleosomal DNA in chromatin.

Authors:  S G Bavykin; S I Usachenko; A O Zalensky; A D Mirzabekov
Journal:  J Mol Biol       Date:  1990-04-05       Impact factor: 5.469

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  76 in total

1.  DNA folding: structural and mechanical properties of the two-angle model for chromatin.

Authors:  H Schiessel; W M Gelbart; R Bruinsma
Journal:  Biophys J       Date:  2001-04       Impact factor: 4.033

Review 2.  Toward convergence of experimental studies and theoretical modeling of the chromatin fiber.

Authors:  Tamar Schlick; Jeff Hayes; Sergei Grigoryev
Journal:  J Biol Chem       Date:  2011-12-07       Impact factor: 5.157

3.  Short nucleosome repeats impose rotational modulations on chromatin fibre folding.

Authors:  Sarah J Correll; Michaela H Schubert; Sergei A Grigoryev
Journal:  EMBO J       Date:  2012-03-30       Impact factor: 11.598

4.  Histone depletion facilitates chromatin loops on the kilobasepair scale.

Authors:  Philipp M Diesinger; Susanne Kunkel; Jörg Langowski; Dieter W Heermann
Journal:  Biophys J       Date:  2010-11-03       Impact factor: 4.033

5.  A continuous-index Bayesian hidden Markov model for prediction of nucleosome positioning in genomic DNA.

Authors:  Ritendranath Mitra; Mayetri Gupta
Journal:  Biostatistics       Date:  2010-12-30       Impact factor: 5.899

6.  Local geometry and elasticity in compact chromatin structure.

Authors:  Elena F Koslover; Colin J Fuller; Aaron F Straight; Andrew J Spakowitz
Journal:  Biophys J       Date:  2010-12-15       Impact factor: 4.033

7.  EM measurements define the dimensions of the "30-nm" chromatin fiber: evidence for a compact, interdigitated structure.

Authors:  Philip J J Robinson; Louise Fairall; Van A T Huynh; Daniela Rhodes
Journal:  Proc Natl Acad Sci U S A       Date:  2006-04-14       Impact factor: 11.205

Review 8.  A variable topology for the 30-nm chromatin fibre.

Authors:  Chenyi Wu; Andrew Bassett; Andrew Travers
Journal:  EMBO Rep       Date:  2007-12       Impact factor: 8.807

9.  Topological constraints on the possible structures of the 30 nm chromatin fibre.

Authors:  D Z Staynov; Y G Proykova
Journal:  Chromosoma       Date:  2007-10-13       Impact factor: 4.316

10.  Combined micrococcal nuclease and exonuclease III digestion reveals precise positions of the nucleosome core/linker junctions: implications for high-resolution nucleosome mapping.

Authors:  Tatiana Nikitina; Difei Wang; Misha Gomberg; Sergei A Grigoryev; Victor B Zhurkin
Journal:  J Mol Biol       Date:  2013-02-28       Impact factor: 5.469

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