Solution structure of d-GAATTCGAATTC by 2D NMR: a new approach to determination of sugar geometries in DNA segments

Hosur, R. V. ; Ravikumar, M. ; Chary, K. V. R. ; Sheth, Anu ; Govil, Girjesh ; Zu-Kun, Tan ; Todd Miles, H. (1986) Solution structure of d-GAATTCGAATTC by 2D NMR: a new approach to determination of sugar geometries in DNA segments FEBS Letters, 205 (1). pp. 71-76. ISSN 0014-5793

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Official URL: http://linkinghub.elsevier.com/retrieve/pii/001457...

Related URL: http://dx.doi.org/10.1016/0014-5793(86)80868-7

Abstract

A new approach based on the correlated spectroscopy (COSY) in 2D NMR has been described for determination of sugar geometries in oligonucleotides. Under the usual low resolution conditions employed in COSY, the intensities of cross peaks depend on the magnitudes of coupling constants. There are five vicinal coupling constants in a deoxyribose ring which are sensitive to the sugar geometry. The presence, absence and rough comparison of relative intensities of COSY cross peaks arising from such coupling constants enable one to fix the sugar conformation to a fair degree of precision. The methodology has been applied to d-GAATTCGAATTC. It is observed that ten out of the twelve nucleotide units in this sequence exhibit a rare Ol'-endo geometry. The EcoRI cleavage sites (between G and A) in the dodecanucleotide show an interesting variation in the conformation with the two sugars attached to the Gs acquiring a geometry between C2'-endo and C4'-endo.

Item Type:Article
Source:Copyright of this article belongs to Federation of European Biochemical Societies.
Keywords:2D NMR; Oligonucleotides Solution Structure; Sugar Geometry
ID Code:15380
Deposited On:13 Nov 2010 09:09
Last Modified:17 May 2016 00:17

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