400d
From Proteopedia
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| - | [[Image:400d.gif|left|200px]] | + | [[Image:400d.gif|left|200px]] |
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| - | '''THE INTRINSIC STRUCTURE AND STABILITY OF OUT-OF-ALTERNATION BASE PAIRS IN Z-DNA''' | + | {{Structure |
| + | |PDB= 400d |SIZE=350|CAPTION= <scene name='initialview01'>400d</scene>, resolution 1.650Å | ||
| + | |SITE= | ||
| + | |LIGAND= | ||
| + | |ACTIVITY= | ||
| + | |GENE= | ||
| + | }} | ||
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| + | '''THE INTRINSIC STRUCTURE AND STABILITY OF OUT-OF-ALTERNATION BASE PAIRS IN Z-DNA''' | ||
| + | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 400D is a [ | + | 400D is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=400D OCA]. |
==Reference== | ==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:[http:// | + | 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:[http://www.ncbi.nlm.nih.gov/pubmed/9862978 9862978] |
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Basham, B.]] | [[Category: Basham, B.]] | ||
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[[Category: z-dna double helix]] | [[Category: z-dna double helix]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 19:07:52 2008'' |
Revision as of 17:07, 20 March 2008
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| Coordinates: | save as pdb, mmCIF, xml | ||||||
THE INTRINSIC STRUCTURE AND STABILITY OF OUT-OF-ALTERNATION BASE PAIRS IN Z-DNA
Overview
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.
About this Structure
400D is a Protein complex structure of sequences from [1]. 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
Page seeded by OCA on Thu Mar 20 19:07:52 2008
