View source for 148d


==THREE-DIMENSIONAL SOLUTION STRUCTURE OF THE THROMBIN BINDING DNA APTAMER D(GGTTGGTGTGGTTGG)==
<StructureSection load='148d' size='340' side='right'caption='[[148d]]' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[148d]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=148D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=148D FirstGlance]. <br>
</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=148d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=148d OCA], [https://pdbe.org/148d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=148d RCSB], [https://www.ebi.ac.uk/pdbsum/148d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=148d ProSAT]</span></td></tr>
</table>
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== Publication Abstract from PubMed ==
The DNA oligonucleotide d(GGTTGGTGTGGTTGG) (thrombin aptamer) binds to thrombin and inhibits its enzymatic activity in the chain of reactions that lead to blood clotting. Two-dimensional 1H NMR studies indicate that the oligonucleotide forms a folded structure in solution, composed of two guanine quartets connected by two T-T loops spanning the narrow grooves at one end and a T-G-T loop spanning a wide groove at the other end. We present the assignment strategy used, methods for the structure determination, and the refined three-dimensional structure of the thrombin aptamer. The initial structures were generated by metric matrix distance geometry using distance and dihedral bond angle constraints from NOE and coupling constants, respectively, and refined by restrained molecular dynamics and direct NOE refinement. Knowledge of the three-dimensional structure of this thrombin aptamer may be relevant for the design of improved thrombin-inhibiting anti-coagulants with similar structural motifs.

Three-dimensional solution structure of the thrombin-binding DNA aptamer d(GGTTGGTGTGGTTGG).,Schultze P, Macaya RF, Feigon J J Mol Biol. 1994 Feb 4;235(5):1532-47. PMID:8107090<ref>PMID:8107090</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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<div class="pdbe-citations 148d" style="background-color:#fffaf0;"></div>
== References ==
<references/>
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</StructureSection>
[[Category: Large Structures]]
[[Category: Feigon J]]
[[Category: Macaya RF]]
[[Category: Schultze P]]