115d
From Proteopedia
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ORDERED WATER STRUCTURE IN AN A-DNA OCTAMER AT 1.7 ANGSTROMS RESOLUTION
Overview
The crystal structure of the deoxyoctamer d(G-G-Br U-A-BrU-A-C-C) was, refined to a resolution of 1.7 A using combined diffractometer and, synchrotron data. The analysis was carried out independently in two, laboratories using different procedures. Although the final results are, identical the comparison of the two approaches highlights potential, problems in the refinement of oligonucleotides when only limited data are, available. As part of the analysis the positions of 84 solvent molecules, in the asymmetric unit were established. The DNA molecule is highly, solvated, particularly the phosphate-sugar back-bone and the functional, groups of the bases. The major groove contains, in the central BrU-A-BrU-A, region, a ribbon of water molecules forming closed pentagons with shared, edges. These water molecules are linked to the base O and N atoms and to, the solvent chains connecting the O-1 phosphate oxygen atoms on each, strand. The minor groove is also extensively hydrated with a continuous, network in the central region and other networks at each end. The pattern, of hydration is briefly compared with that observed in the structure of a, B-dodecamer.
About this Structure
115D is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Ordered water structure in an A-DNA octamer at 1.7 A resolution., Kennard O, Cruse WB, Nachman J, Prange T, Shakked Z, Rabinovich D, J Biomol Struct Dyn. 1986 Feb;3(4):623-47. PMID:3271041
Page seeded by OCA on Sat Nov 24 21:46:12 2007
