400d: Difference between revisions

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[[Image:400d.gif|left|200px]]
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{{STRUCTURE_400d|  PDB=400d  |  SCENE=  }}  
{{STRUCTURE_400d|  PDB=400d  |  SCENE=  }}  


'''THE INTRINSIC STRUCTURE AND STABILITY OF OUT-OF-ALTERNATION BASE PAIRS IN Z-DNA'''
===THE INTRINSIC STRUCTURE AND STABILITY OF OUT-OF-ALTERNATION BASE PAIRS IN Z-DNA===




==Overview==
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Alternating pyrimidine-purine sequences typically form Z-DNA, with the pyrimidines in the anti and purines in the syn conformations. The observation that dC and dT nucleotides can also adopt the syn conformation (i.e. the nucleotides are out-of-alternation) extends the range of sequences that can convert to this left-handed form of DNA. Here, we study the effects of placing two adjacent d(G*C) base pairs as opposed to a single d(G*C) base pair or two d(A*T) base pairs out-of-alternation by comparing the structure of d(m5CGGCm5CG)2with the previously published structures of d(m5CGGGm5CG)*d(m5CGCCm5CG) and d(m5CGATm5CG)2. A high buckle and loss of stacking interactions are observed as intrinsic properties of the out-of-alternation base pairs regardless of sequence and the context of the dinucleotide. From solution titrations, we find that the destabilizing effect of out-of-alternation d(G*C) base pairs are identical whether these base pairs are adjacent or isolated. We can therefore conclude that it is these intrinsic distortions in the structure of the base pairs and not neighboring effects that account for the inability of out-of-alternation base pairs to adopt the left-handed Z conformation.
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{{ABSTRACT_PUBMED_9862978}}


==About this Structure==
==About this Structure==
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[[Category: Schroth, G P.]]
[[Category: Schroth, G P.]]
[[Category: Z-dna double helix]]
[[Category: Z-dna double helix]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 22:15:59 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jul 3 13:14:17 2008''

Revision as of 10:14, 3 July 2008

File:400d.png

Template:STRUCTURE 400d

THE INTRINSIC STRUCTURE AND STABILITY OF OUT-OF-ALTERNATION BASE PAIRS IN Z-DNA

Template:ABSTRACT PUBMED 9862978

About this Structure

Full crystallographic information is available from OCA.

Reference

The intrinsic structure and stability of out-of-alternation base pairs in Z-DNA., Eichman BF, Schroth GP, Basham BE, Ho PS, Nucleic Acids Res. 1999 Jan 15;27(2):543-50. PMID:9862978

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