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1fv8
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'''NMR STUDY OF AN HETEROCHIRAL HAIRPIN''' | '''NMR STUDY OF AN HETEROCHIRAL HAIRPIN''' | ||
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==About this Structure== | ==About this Structure== | ||
| - | + | Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FV8 OCA]. | |
==Reference== | ==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:[http://www.ncbi.nlm.nih.gov/pubmed/11790144 11790144] | 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:[http://www.ncbi.nlm.nih.gov/pubmed/11790144 11790144] | ||
| - | [[Category: Protein complex]] | ||
[[Category: Amri, C El.]] | [[Category: Amri, C El.]] | ||
[[Category: Fermandjian, S.]] | [[Category: Fermandjian, S.]] | ||
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[[Category: Rayner, B.]] | [[Category: Rayner, B.]] | ||
[[Category: Santamaria, F.]] | [[Category: Santamaria, F.]] | ||
| - | [[Category: | + | [[Category: Antisense dna]] |
| - | [[Category: | + | [[Category: Flexibilty]] |
| - | [[Category: | + | [[Category: Hairpin]] |
| - | [[Category: | + | [[Category: Heterochiral loop]] |
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Revision as of 13:48, 2 May 2008
NMR STUDY OF AN HETEROCHIRAL HAIRPIN
Overview
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.
About this Structure
Full crystallographic 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 Page seeded by OCA on Fri May 2 16:48:08 2008
