121d: Difference between revisions

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<StructureSection load='121d' size='340' side='right'caption='[[121d]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
<StructureSection load='121d' size='340' side='right'caption='[[121d]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[121d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=121D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=121D FirstGlance]. <br>
<table><tr><td colspan='2'>[[121d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=121D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=121D FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NT:NETROPSIN'>NT</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=121d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=121d OCA], [http://pdbe.org/121d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=121d RCSB], [http://www.ebi.ac.uk/pdbsum/121d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=121d ProSAT]</span></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NT:NETROPSIN'>NT</scene></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=121d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=121d OCA], [https://pdbe.org/121d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=121d RCSB], [https://www.ebi.ac.uk/pdbsum/121d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=121d ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The molecular structure of the complex between the minor groove binding drug netropsin and the dodecamer d(CGCAAATTTGCG) has been solved and refined by X-ray diffraction analysis to an R-factor of 19.8% and 2.2-A resolution. The drug lies in the narrow minor groove of the B-DNA fragment, covering five of the six A.T base pairs (from A5.T20 to T9.A16). The long six A.T base pair tract allows the drug to bind in a position that optimizes its contacts with the DNA, establishing hydrogen bonds with O2 of thymines and N3 of adenines. The DNA molecule shows a high propeller twist only at the A6.T19 step of the A-tract. Two three-centered hydrogen bonds are observed in the major groove at half of the A-tract.
Molecular structure of the A-tract DNA dodecamer d(CGCAAATTTGCG) complexed with the minor groove binding drug netropsin.,Tabernero L, Verdaguer N, Coll M, Fita I, van der Marel GA, van Boom JH, Rich A, Aymami J Biochemistry. 1993 Aug 24;32(33):8403-10. PMID:8395202<ref>PMID:8395202</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 121d" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Aymami, J]]
[[Category: Aymami J]]
[[Category: Boom, J H.Van]]
[[Category: Coll M]]
[[Category: Coll, M]]
[[Category: Fita I]]
[[Category: Fita, I]]
[[Category: Rich A]]
[[Category: Marel, G A.Van Der]]
[[Category: Tabernero L]]
[[Category: Rich, A]]
[[Category: Van Boom JH]]
[[Category: Tabernero, L]]
[[Category: Van Der Marel GA]]
[[Category: Verdaguer, N]]
[[Category: Verdaguer N]]
[[Category: B-dna]]
[[Category: Complexed with drug]]
[[Category: Dna]]
[[Category: Double helix]]

Latest revision as of 09:24, 7 February 2024

MOLECULAR STRUCTURE OF THE A-TRACT DNA DODECAMER D(CGCAAATTTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSINMOLECULAR STRUCTURE OF THE A-TRACT DNA DODECAMER D(CGCAAATTTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN

Structural highlights

121d is a 2 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.2Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

121d, resolution 2.20Å

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