J Biomol Struct Dyn. 2007 Jun;24(6):547-52.

Packing features of the all-AT oligonucleotide d(AAATTT).

Valls N, Santaolalla A, Campos JL, Subirana JA.

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Departament d'Enginyeria Quimica, Universitat Politecnica de Catalunya, Av. Diagonal 647, E-08028 Barcelona, Spain.

Abstract

We describe the packing features of the oligonucleotide duplex d(AAATTT)2, as determined by X-ray diffraction. There is little information on sequences that only contain A and T bases. The present structure confirms that these sequences tend to pack as a helical arrangement of stacked oligonucleotides in a B conformation with Watson-Crick hydrogen bonding. Our results demonstrate that the virtual TA base step between stacked duplexes has a negative twist that improves base stacking. This observation is consistent with the low stability of TA base steps in B-form DNA.

PMID:: 17508776; [PubMed - indexed for MEDLINE]

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Structures reported by this article

X-Ray Structure Of The Oligonucleotide Sequence D(Aaattt)

PDB: 2G1Z

Source: synthetic construct

Method: X-Ray Diffraction

Resolution: 3.11 Å

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Packing features of the all-AT oligonucleotide d(AAATTT).
Packing features of the all-AT oligonucleotide d(AAATTT).
J Biomol Struct Dyn. 2007 Jun ;24(6):547-52.

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