Hydration of the DNA bases is local

Ordered hydration sites were determined for the nucleotide bases in B-type conformations using the crystal structure data on 14 B-DNA decamer structures. A method of density representation was extended so that positions, occupancies, and distributions of the hydration sites were predicted around a B...

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Bibliographic Details
Published inBiophysical journal Vol. 69; no. 6; pp. 2661 - 2669
Main Authors Schneider, B., Berman, H.M.
Format Journal Article
LanguageEnglish
Published United States Elsevier Inc 01.12.1995
Subjects
Adenine
Base Sequence
Crystallography, X-Ray
Cytosine
Databases, Factual
DNA - chemistry
Guanine
Hydrogen Bonding
Models, Molecular
Molecular Sequence Data
Nucleic Acid Conformation
Oligodeoxyribonucleotides - chemistry
Thymine
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Summary:Ordered hydration sites were determined for the nucleotide bases in B-type conformations using the crystal structure data on 14 B-DNA decamer structures. A method of density representation was extended so that positions, occupancies, and distributions of the hydration sites were predicted around a B-DNA double helix by a method analogous to crystallographic refinement. The predicted hydration sites correctly reproduce the main features of hydration around the B-DNA dodecamer. In contrast to the previous observations, the newly available crystal data show the same extent of hydration of guanine and adenine, and of cytosine and thymine.
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ISSN:0006-3495
1542-0086
DOI:10.1016/S0006-3495(95)80136-0