Literature DB >> 2619933

Defining the structure of irregular nucleic acids: conventions and principles.

R Lavery1, H Sklenar.   

Abstract

The algorithm "Curves", that we have recently presented in this journal (J. Biolmol. Str. Dynam. 6, 63-91 (1988], is updated to take into account the conventions developed at the Cambridge meeting on DNA curvature (September 1988) and extended to the calculation of local parameters. In addition, the principles which govern the choices made in establishing the Curves algorithm are compared with the approaches adopted by other authors.

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Year:  1989        PMID: 2619933     DOI: 10.1080/07391102.1989.10507728

Source DB:  PubMed          Journal:  J Biomol Struct Dyn        ISSN: 0739-1102


  207 in total

1.  Abasic sites in duplex DNA: molecular modeling of sequence-dependent effects on conformation.

Authors:  L Ayadi; C Coulombeau; R Lavery
Journal:  Biophys J       Date:  1999-12       Impact factor: 4.033

2.  Local conformational variations observed in B-DNA crystals do not improve base stacking: computational analysis of base stacking in a d(CATGGGCCCATG)(2) B<-->A intermediate crystal structure.

Authors:  J Poner; J Florián; H L Ng; J E Poner; N Packová
Journal:  Nucleic Acids Res       Date:  2000-12-15       Impact factor: 16.971

3.  Modeling helix-turn-helix protein-induced DNA bending with knowledge-based distance restraints.

Authors:  W S Tzou; M J Hwang
Journal:  Biophys J       Date:  1999-09       Impact factor: 4.033

4.  A molecular model for RecA-promoted strand exchange via parallel triple-stranded helices.

Authors:  G Bertucat; R Lavery; C Prévost
Journal:  Biophys J       Date:  1999-09       Impact factor: 4.033

5.  Conformational deformability of RNA: a harmonic mode analysis.

Authors:  M Zacharias; H Sklenar
Journal:  Biophys J       Date:  2000-05       Impact factor: 4.033

6.  Crystallographic snapshots along a protein-induced DNA-bending pathway.

Authors:  N C Horton; J J Perona
Journal:  Proc Natl Acad Sci U S A       Date:  2000-05-23       Impact factor: 11.205

7.  The solution structure of [d(CGC)r(aaa)d(TTTGCG)](2): hybrid junctions flanked by DNA duplexes.

Authors:  S T Hsu; M T Chou; J W Cheng
Journal:  Nucleic Acids Res       Date:  2000-03-15       Impact factor: 16.971

8.  Restrained molecular dynamics of solvated duplex DNA using the particle mesh Ewald method.

Authors:  D E Konerding; T E Cheatham; P A Kollman; T L James
Journal:  J Biomol NMR       Date:  1999-02       Impact factor: 2.835

9.  The solution structure of [d(CGC)r(amamam)d(TTTGCG)]2.

Authors:  Y P Tsao; L Y Wang; S T Hsu; M L Jain; S H Chou; C Huang; J W Cheng
Journal:  J Biomol NMR       Date:  2001-11       Impact factor: 2.835

10.  Crystal structures of two intermediates in the assembly of the papillomavirus replication initiation complex.

Authors:  Eric J Enemark; Arne Stenlund; Leemor Joshua-Tor
Journal:  EMBO J       Date:  2002-03-15       Impact factor: 11.598

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