Literature DB >> 19174848

Z-DNA crystallography .

P S Ho1, B H Mooers.   

Abstract

We review the effect of sequence on the structure of left-handed Z-DNA in single crystals. The various substituent groups that define a nucleotide base as guanine, cytosine,thymine, or adenine affect both the DNA conformation and the organization of solvent around the duplex. These are discussed in terms of their effect on the ability of sequences to adopt the unusual Z-DNA structure. In addition, the experimental and theoretical methods used to treat DNA hydration are discussed as they relate to the stability of Z-DNA . Finally, we argue that Z-DNA , as defined by the crystal conformation, is sufficient in itself to account for the physical properties of left-handed conformations observed in polymers and in genomic sequences

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Year:  1997        PMID: 19174848     DOI: 10.1002/(SICI)1097-0282(1997)44:1<65::AID-BIP5>3.0.CO;2-Y

Source DB:  PubMed          Journal:  Biopolymers        ISSN: 0006-3525            Impact factor:   2.505


  11 in total

1.  The transition between the B and Z conformations of DNA investigated by targeted molecular dynamics simulations with explicit solvation.

Authors:  Mika A Kastenholz; Thomas U Schwartz; Philippe H Hünenberger
Journal:  Biophys J       Date:  2006-10-15       Impact factor: 4.033

2.  The crystal structure of Z-DNA with untypically coordinated Ca2+ ions.

Authors:  Zhipu Luo; Zbigniew Dauter
Journal:  J Biol Inorg Chem       Date:  2017-12-21       Impact factor: 3.358

3.  Cobalt hexammine induced tautomeric shift in Z-DNA: the structure of d(CGCGCA)*d(TGCGCG) in two crystal forms.

Authors:  S Thiyagarajan; S S Rajan; N Gautham
Journal:  Nucleic Acids Res       Date:  2004-11-08       Impact factor: 16.971

4.  A molecular dynamics simulation study of polyamine- and sodium-DNA. Interplay between polyamine binding and DNA structure.

Authors:  Nikolay Korolev; Alexander P Lyubartsev; Aatto Laaksonen; Lars Nordenskiöld
Journal:  Eur Biophys J       Date:  2004-05-14       Impact factor: 1.733

5.  Hydration of short DNA, RNA and 2'-OMe oligonucleotides determined by osmotic stressing.

Authors:  Eriks Rozners; Janelle Moulder
Journal:  Nucleic Acids Res       Date:  2004-01-09       Impact factor: 16.971

6.  Sequence-dependent DNA condensation and the electrostatic zipper.

Authors:  J C Sitko; E M Mateescu; H G Hansma
Journal:  Biophys J       Date:  2003-01       Impact factor: 4.033

7.  Reintroducing electrostatics into macromolecular crystallographic refinement: application to neutron crystallography and DNA hydration.

Authors:  Timothy D Fenn; Michael J Schnieders; Marat Mustyakimov; Chuanjie Wu; Paul Langan; Vijay S Pande; Axel T Brunger
Journal:  Structure       Date:  2011-04-13       Impact factor: 5.006

8.  'Z-DNA like' fragments in RNA: a recurring structural motif with implications for folding, RNA/protein recognition and immune response.

Authors:  Luigi D'Ascenzo; Filip Leonarski; Quentin Vicens; Pascal Auffinger
Journal:  Nucleic Acids Res       Date:  2016-05-05       Impact factor: 16.971

9.  Mg2+ ions: do they bind to nucleobase nitrogens?

Authors:  Filip Leonarski; Luigi D'Ascenzo; Pascal Auffinger
Journal:  Nucleic Acids Res       Date:  2016-12-06       Impact factor: 16.971

10.  The structures of non-CG-repeat Z-DNAs co-crystallized with the Z-DNA-binding domain, hZ alpha(ADAR1).

Authors:  Sung Chul Ha; Jongkeun Choi; Hye-Yeon Hwang; Alexander Rich; Yang-Gyun Kim; Kyeong Kyu Kim
Journal:  Nucleic Acids Res       Date:  2008-12-11       Impact factor: 16.971

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