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136d

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{{STRUCTURE_136d| PDB=136d | SCENE= }}
{{STRUCTURE_136d| PDB=136d | SCENE= }}
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'''SOLUTION STRUCTURE OF A PURINE(DOT)PURINE(DOT)PYRIMIDINE DNA TRIPLEX CONTAINING G(DOT)GC AND T(DOT)AT TRIPLES'''
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===SOLUTION STRUCTURE OF A PURINE(DOT)PURINE(DOT)PYRIMIDINE DNA TRIPLEX CONTAINING G(DOT)GC AND T(DOT)AT TRIPLES===
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==Overview==
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BACKGROUND: Oligonucleotide-directed triple helix formation allows sequence specific recognition of double helical DNA. This powerful approach has been used to inhibit gene transcription in vitro and to mediate single site specific cleavage of a human chromosome. RESULTS: Using a combined NMR and molecular dynamics approach (including relaxation matrix refinement), we have determined the solution structure of an intramolecular purine.purine.pyrimidine (R.RY) DNA triplex containing guanines and thymines in the third strand to high resolution. Our studies define the G.GC and T.AT base triple pairing alignments in the R.RY triplex and identify the structural discontinuities in the third strand associated with the non-isomorphism of the base triples. The 5'-d(TpG)-3' base steps exhibit a pronounced increase in axial rise and reduction in helical twist, while the reverse is observed, to a lesser extent at 5'-d(GpT)-3' steps. A third groove is formed between the purine-rich third strand and the pyrimidine strand. It is wider and deeper than the other two grooves. CONCLUSIONS: Our structure of the R.RY DNA triplex will be important in the design of oligonucleotide probes with enhanced specificity and affinity for targeting in the genome. The third groove presents a potential target for binding additional ligands.
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(as it appears on PubMed at http://www.pubmed.gov), where 8069626 is the PubMed ID number.
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{{ABSTRACT_PUBMED_8069626}}
==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=136D OCA].
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Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=136D OCA].
==Reference==
==Reference==
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[[Category: Nmr]]
[[Category: Nmr]]
[[Category: Triplex]]
[[Category: Triplex]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 09:29:20 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 15:28:14 2008''

Revision as of 12:28, 30 June 2008

Image:136d.png

Template:STRUCTURE 136d

SOLUTION STRUCTURE OF A PURINE(DOT)PURINE(DOT)PYRIMIDINE DNA TRIPLEX CONTAINING G(DOT)GC AND T(DOT)AT TRIPLES

Template:ABSTRACT PUBMED 8069626

About this Structure

Full experimental information is available from OCA.

Reference

Solution structure of a purine.purine.pyrimidine DNA triplex containing G.GC and T.AT triples., Radhakrishnan I, Patel DJ, Structure. 1993 Oct 15;1(2):135-52. PMID:8069626

Page seeded by OCA on Mon Jun 30 15:28:14 2008

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