135d: Difference between revisions

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-{{Seed}}
-[[Image:135d.png|left|200px]]
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+==SOLUTION STRUCTURE OF A PURINE(DOT)PURINE(DOT)PYRIMIDINE DNA TRIPLEX CONTAINING G(DOT)GC AND T(DOT)AT TRIPLES==
-The line below this paragraph, containing "STRUCTURE_135d", creates the "Structure Box" on the page.
+<StructureSection load='135d' size='340' side='right'caption='[[135d]]' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[135d]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=135D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=135D FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
--->
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=135d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=135d OCA], [https://pdbe.org/135d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=135d RCSB], [https://www.ebi.ac.uk/pdbsum/135d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=135d ProSAT]</span></td></tr>
-{{STRUCTURE_135d|  PDB=135d  |  SCENE=  }}
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+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.
-===SOLUTION STRUCTURE OF A PURINE(DOT)PURINE(DOT)PYRIMIDINE DNA TRIPLEX CONTAINING G(DOT)GC AND T(DOT)AT TRIPLES===
+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<ref>PMID:8069626</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_8069626}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 135d" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 8069626 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_8069626}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=135D OCA].
+[[Category: Patel DJ]]
+[[Category: Radhakrishnan I]]
-==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:[http://www.ncbi.nlm.nih.gov/pubmed/8069626 8069626]
-[[Category: Patel, D J.]]
-[[Category: Radhakrishnan, I.]]
-[[Category: Dna]]
-[[Category: Nmr]]
-[[Category: Triplex]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 15:28:14 2008''