1wan

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:27, 6 December 2023) (edit) (undo)
 
(9 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1wan.gif|left|200px]]
 
-
<!--
+
==DNA DTA TRIPLEX, NMR, 7 STRUCTURES==
-
The line below this paragraph, containing "STRUCTURE_1wan", creates the "Structure Box" on the page.
+
<StructureSection load='1wan' size='340' side='right'caption='[[1wan]]' 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'>[[1wan]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WAN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WAN 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='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=D3:1-(2-DEOXY-BETA-D-RIBOFURANOSYL)-4-(3-BENZAMIDO)PHENYLIMIDAZOLE'>D3</scene></td></tr>
-
{{STRUCTURE_1wan| PDB=1wan | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1wan FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wan OCA], [https://pdbe.org/1wan PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1wan RCSB], [https://www.ebi.ac.uk/pdbsum/1wan PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1wan ProSAT]</span></td></tr>
-
 
+
</table>
-
'''DNA DTA TRIPLEX, NMR, 7 STRUCTURES'''
+
<div style="background-color:#fffaf0;">
-
 
+
== Publication Abstract from PubMed ==
-
 
+
-
==Overview==
+
We have used NMR spectroscopy to study a pyrimidine-purine-pyrimidine DNA triplex containing a non-natural base, 1-(2-deoxy-beta-D-ribofuranosyl)-4-(3-benzamido)phenylimidazole (D3), in the third strand. The D3 base has been previously shown to specifically recognize T-A and C-G base-pairs via intercalation on the 3' side (with respect to the purine strand) of the target base pair, instead of forming sequence-specific hydrogen bonds. 1H resonance assignments have been made for the D3 base and most of the non-loop portion of the triplex. The solution structure of the triplex was calculated using restrained molecular dynamics and complete relaxation matrix refinement. The duplex portion of the triplex has an over-all helical structure that is more similar to B-DNA than to A-DNA. The three aromatic rings of the D3 base stack on the bases of all three strands and mimic a triplet. The conformation of the D3 base and its sequence specificity are discussed.
We have used NMR spectroscopy to study a pyrimidine-purine-pyrimidine DNA triplex containing a non-natural base, 1-(2-deoxy-beta-D-ribofuranosyl)-4-(3-benzamido)phenylimidazole (D3), in the third strand. The D3 base has been previously shown to specifically recognize T-A and C-G base-pairs via intercalation on the 3' side (with respect to the purine strand) of the target base pair, instead of forming sequence-specific hydrogen bonds. 1H resonance assignments have been made for the D3 base and most of the non-loop portion of the triplex. The solution structure of the triplex was calculated using restrained molecular dynamics and complete relaxation matrix refinement. The duplex portion of the triplex has an over-all helical structure that is more similar to B-DNA than to A-DNA. The three aromatic rings of the D3 base stack on the bases of all three strands and mimic a triplet. The conformation of the D3 base and its sequence specificity are discussed.
-
==About this Structure==
+
Solution structure of a pyrimidine-purine-pyrimidine triplex containing the sequence-specific intercalating non-natural base D3.,Wang E, Koshlap KM, Gillespie P, Dervan PB, Feigon J J Mol Biol. 1996 Apr 19;257(5):1052-69. PMID:8632468<ref>PMID:8632468</ref>
-
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WAN OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
Solution structure of a pyrimidine-purine-pyrimidine triplex containing the sequence-specific intercalating non-natural base D3., Wang E, Koshlap KM, Gillespie P, Dervan PB, Feigon J, J Mol Biol. 1996 Apr 19;257(5):1052-69. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8632468 8632468]
+
</div>
-
[[Category: Dervan, P B.]]
+
<div class="pdbe-citations 1wan" style="background-color:#fffaf0;"></div>
-
[[Category: Feigon, J.]]
+
== References ==
-
[[Category: Gillespie, P.]]
+
<references/>
-
[[Category: Koshlap, K M.]]
+
__TOC__
-
[[Category: Wang, E.]]
+
</StructureSection>
-
[[Category: Deoxyribonucleic acid]]
+
[[Category: Large Structures]]
-
[[Category: Intercalator]]
+
[[Category: Dervan PB]]
-
[[Category: Triplex]]
+
[[Category: Feigon J]]
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 13:23:24 2008''
+
[[Category: Gillespie P]]
 +
[[Category: Koshlap KM]]
 +
[[Category: Wang E]]

Current revision

DNA DTA TRIPLEX, NMR, 7 STRUCTURES

PDB ID 1wan

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1wan"
Personal tools