Literature DB >> 7063417

The ten helical twist angles of B-DNA.

W Kabsch, C Sander, E N Trifonov.   

Abstract

On the assumption that the twist angles between adjacent base-pairs in the DNA molecule are additive a linear system of 40 equations was derived from experimental measurements of the total twist angles for different pieces of DNA of known sequences. This system of equations is found to be statistically consistent providing a solution for all ten possible twist angles of B-DNA by a least squares fitting procedure. Four of the calculated twist angles were not known before (tau AC, tau AG, tau CA, tau TA). The other six twist angles calculated are very close to the experimentally measured ones (tau AA, tau AT, tau CC, tau OG, tau GA, tau GC). The data used were obtained by the electrophoretic band-shift method (1-3), crystallography (4) and nuclease digestion of DNA adsorbed to mica or Ca-phosphate surface (5,6). The validity of the principle of additivity of the twist angles implies that the angle between any particular two base-pairs is a function of only these base-pairs, independent of nearest neighbours.

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Year:  1982        PMID: 7063417      PMCID: PMC326224          DOI: 10.1093/nar/10.3.1097

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  5 in total

1.  Structure of a B-DNA dodecamer. II. Influence of base sequence on helix structure.

Authors:  R E Dickerson; H R Drew
Journal:  J Mol Biol       Date:  1981-07-15       Impact factor: 5.469

2.  Sequence dependence of the helical repeat of DNA in solution.

Authors:  L J Peck; J C Wang
Journal:  Nature       Date:  1981-07-23       Impact factor: 49.962

3.  Sequence-dependent helical periodicity of DNA.

Authors:  D Rhodes; A Klug
Journal:  Nature       Date:  1981-07-23       Impact factor: 49.962

4.  Changes in the helical repeat of poly(dG-m5dC) . poly(dG-m5dC) and poly(dG-dC) . poly(dG-dC) associated with the B-Z transition.

Authors:  M Behe; S Zimmerman; G Felsenfeld
Journal:  Nature       Date:  1981 Sep 17-23       Impact factor: 49.962

5.  Helical periodicity of DNA, Poly(dA) . poly(dT) and poly(dA-dT). poly(dA-dT) in solution.

Authors:  F Strauss; C Gaillard; A Prunell
Journal:  Eur J Biochem       Date:  1981-08
  5 in total
  46 in total

1.  Sequence-dependent B<-->A transition in DNA evaluated with dimeric and trimeric scales.

Authors:  M Y Tolstorukov; V I Ivanov; G G Malenkov; R L Jernigan; V B Zhurkin
Journal:  Biophys J       Date:  2001-12       Impact factor: 4.033

2.  Left-handedly curved DNA regulates accessibility to cis-DNA elements in chromatin.

Authors:  Jun-ichi Nishikawa; Miho Amano; Yoshiro Fukue; Shigeo Tanaka; Haruka Kishi; Yoshiko Hirota; Kinya Yoda; Takashi Ohyama
Journal:  Nucleic Acids Res       Date:  2003-11-15       Impact factor: 16.971

3.  Binding sites of different geometries for the 16-3 phage repressor.

Authors:  Peter P Papp; Tibor Nagy; Szilamér Ferenczi; Peter Elõ; Zsolt Csiszovszki; Zsuzsanna Buzás; András Patthy; László Orosz
Journal:  Proc Natl Acad Sci U S A       Date:  2002-06-25       Impact factor: 11.205

4.  3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures.

Authors:  Xiang-Jun Lu; Wilma K Olson
Journal:  Nucleic Acids Res       Date:  2003-09-01       Impact factor: 16.971

5.  DNA trajectory in the Gal repressosome.

Authors:  Szabolcs Semsey; Michail Y Tolstorukov; Konstantin Virnik; Victor B Zhurkin; Sankar Adhya
Journal:  Genes Dev       Date:  2004-08-01       Impact factor: 11.361

6.  p53-induced DNA bending and twisting: p53 tetramer binds on the outer side of a DNA loop and increases DNA twisting.

Authors:  A K Nagaich; V B Zhurkin; S R Durell; R L Jernigan; E Appella; R E Harrington
Journal:  Proc Natl Acad Sci U S A       Date:  1999-03-02       Impact factor: 11.205

7.  Curved DNA without A-A: experimental estimation of all 16 DNA wedge angles.

Authors:  A Bolshoy; P McNamara; R E Harrington; E N Trifonov
Journal:  Proc Natl Acad Sci U S A       Date:  1991-03-15       Impact factor: 11.205

8.  Common DNA structural features exhibited by eukaryotic ribosomal gene promoters.

Authors:  M Marilley; P Pasero
Journal:  Nucleic Acids Res       Date:  1996-06-15       Impact factor: 16.971

9.  An assessment of three dinucleotide parameters to predict DNA curvature by quantitative comparison with experimental data.

Authors:  Aditi Kanhere; Manju Bansal
Journal:  Nucleic Acids Res       Date:  2003-05-15       Impact factor: 16.971

10.  A computer algorithm for testing potential prokaryotic terminators.

Authors:  V Brendel; E N Trifonov
Journal:  Nucleic Acids Res       Date:  1984-05-25       Impact factor: 16.971

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