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{{STRUCTURE_1fv8| PDB=1fv8 | SCENE= }}
{{STRUCTURE_1fv8| PDB=1fv8 | SCENE= }}
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'''NMR STUDY OF AN HETEROCHIRAL HAIRPIN'''
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===NMR STUDY OF AN HETEROCHIRAL HAIRPIN===
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==Overview==
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We carried out a structural study of the DNA heterochiral strand d (AGCTTATCAT(L)CGATAAGCT), -AT(L)C-, where T(L) (L thymine ) replaces T (natural D-thymine). -AT(L)C- is a structural analog of -ATC- that belongs to a strong topoisomerase II DNA cleavage site and which has been shown to resolve into a hairpin structure with a stem formed by eight Waston-Crick base-pairs and a single residue loop closed by an A.C sheared base-pair. Although - AT(L)C-, like its parent -ATC-, folds into a hairpin structure at low and high DNA concentrations it displays a lower stability (Tm of 56 degrees C versus 58.5 degrees C). Several NMR features in -AT(L)C- account for the disruption of the A.C pairing in the loop and a weakening of the C.G base-pair stability at the stem-loop junction. For instance, the exchange of the loop imino protons with solvent is accelerated compared with the natural oligonucleotide -ATC-. The higher flexibility of the heterochiral loop is confirmed by the results of NMR restrained molecular dynamics. In the calculated final structures of -AT(L)C-, the T10(L) residue moves the A9 and C11 residues away, thus preventing the loop closure through a C.A sheared base-pair and the achievement of a good base-base or sugar-base stacking. Actually, most of the stabilizing interactions present in -ATC- are lost in the heterochiral - AT(L)C- explaining its weaker stability.
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{{ABSTRACT_PUBMED_11790144}}
==About this Structure==
==About this Structure==
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FV8 OCA].
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Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FV8 OCA].
==Reference==
==Reference==
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[[Category: Hairpin]]
[[Category: Hairpin]]
[[Category: Heterochiral loop]]
[[Category: Heterochiral loop]]
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Revision as of 00:59, 1 July 2008

Image:1fv8.png

Template:STRUCTURE 1fv8

NMR STUDY OF AN HETEROCHIRAL HAIRPIN

Template:ABSTRACT PUBMED 11790144

About this Structure

Full experimental information is available from OCA.

Reference

NMR study of a heterochiral DNA hairpin:impact of L-enantiomery in the loop., El Amri C, Mauffret O, Santamariar F, Tevanian G, Rayner S, Fermandjian S, J Biomol Struct Dyn. 2001 Dec;19(3):459-70. PMID:11790144

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