Literature DB >> 6873283

Specific alignment of nucleosomes on DNA correlates with periodic distribution of purine-pyrimidine and pyrimidine-purine dimers.

V B Zhurkin.   

Abstract

Comparison of the X-ray data and results of conformational analysis reveals the sequence-dependent helical anisotrophy of DNA: purine-pyrimidine (RY) and pyrimidine-purine (YR) dimers prefer bending in the opposite directions. On this basis it is suggested that in the optimal nucleosomal DNA sequence the RY and YR dinucleotides alternate at intervals of 5-6 basepairs. Examination of the cases with the known disposition of nucleosomes confirms this concept.

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Year:  1983        PMID： 6873283     DOI： 10.1016/0014-5793(83)80598-5

Source DB:  PubMed          Journal:  FEBS Lett        ISSN： 0014-5793            Impact factor:   4.124


  17 in total

1.  Variety of genomic DNA patterns for nucleosome positioning.

Authors:  Ilya Ioshikhes; Sergey Hosid; B Franklin Pugh
Journal:  Genome Res       Date:  2011-07-12       Impact factor: 9.043

2.  A novel roll-and-slide mechanism of DNA folding in chromatin: implications for nucleosome positioning.

Authors:  Michael Y Tolstorukov; Andrew V Colasanti; David M McCandlish; Wilma K Olson; Victor B Zhurkin
Journal:  J Mol Biol       Date:  2007-05-24       Impact factor: 5.469

3.  nuScore: a web-interface for nucleosome positioning predictions.

Authors:  Michael Y Tolstorukov; Vidhu Choudhary; Wilma K Olson; Victor B Zhurkin; Peter J Park
Journal:  Bioinformatics       Date:  2008-04-29       Impact factor: 6.937

4.  Analysis of local helix bending in crystal structures of DNA oligonucleotides and DNA-protein complexes.

Authors:  M A Young; G Ravishanker; D L Beveridge; H M Berman
Journal:  Biophys J       Date:  1995-06       Impact factor: 4.033

5.  DNA bending: the prevalence of kinkiness and the virtues of normality.

Authors:  R E Dickerson
Journal:  Nucleic Acids Res       Date:  1998-04-15       Impact factor: 16.971

6.  PCR-based development of DNA substrates containing modified bases: an efficient system for investigating the role of the exocyclic groups in chemical and structural recognition by minor groove binding drugs and proteins.

Authors:  C Bailly; D Payet; A A Travers; M J Waring
Journal:  Proc Natl Acad Sci U S A       Date:  1996-11-26       Impact factor: 11.205

7.  Detection, sequence patterns and function of unusual DNA structures.

Authors:  J N Anderson
Journal:  Nucleic Acids Res       Date:  1986-11-11       Impact factor: 16.971

8.  Structure-based analysis of DNA sequence patterns guiding nucleosome positioning in vitro.

Authors:  Feng Cui; Victor B Zhurkin
Journal:  J Biomol Struct Dyn       Date:  2010-06

9.  A translational signature for nucleosome positioning in vivo.

Authors:  Micaela Caserta; Eleonora Agricola; Mark Churcher; Edwige Hiriart; Loredana Verdone; Ernesto Di Mauro; Andrew Travers
Journal:  Nucleic Acids Res       Date:  2009-07-13       Impact factor: 16.971

10.  DNA sequence-directed nucleosome reconstitution on 5S RNA genes of Xenopus laevis.

Authors:  J M Gottesfeld
Journal:  Mol Cell Biol       Date:  1987-05       Impact factor: 4.272
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