4zym: Difference between revisions

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'''Unreleased structure'''


The entry 4zym is ON HOLD
==Structural implications of homo-pyrimidine base pairs on the parallel-stranded d(GAY) motif.==
<StructureSection load='4zym' size='340' side='right'caption='[[4zym]], [[Resolution|resolution]] 2.53&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[4zym]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZYM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZYM FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.53&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=4zym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zym OCA], [https://pdbe.org/4zym PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4zym RCSB], [https://www.ebi.ac.uk/pdbsum/4zym PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4zym ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
DNA can adopt many other structures beyond the canonical B-form double helix. There has been a growing interest in using non-canonical base pairs to provide structural diversity for designing DNA architectures for nanotechnology applications. We recently described the crystal structure of d(ACTCGGATGAT) which forms a tetraplex through parallel-stranded homobase pairs and nucleobase intercalation. Here, we examine the structural implications of the homo-pyrimidine base pair within this motif. We have determined crystal structures of two variants that differ from the original structure in the homo-pyrimidine base pairs and number of d(YGA) motifs. Our results show that the intercalation-locked tetraplex motif is predictable and that the substitution of C-C base pairs for T-T base pairs introduces asymmetry to the homoduplex. This hasimplications for utilizing d(YGA) motifs in DNA crystal design and may provide a basis for understanding local structures associated with repeat expansions.


Authors: Tripathi, S.K., Paukstelis, P.
Structural implications of homo-pyrimidine base pairs in the parallel-stranded d(YGA) motif.,Tripathi S, Paukstelis PJ Chembiochem. 2015 Dec 2. doi: 10.1002/cbic.201500491. PMID:26629965<ref>PMID:26629965</ref>


Description: Structural implications of homo-pyrimidine base pairs on the parallel-stranded d(GAY) motif.
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
[[Category: Unreleased Structures]]
</div>
[[Category: Paukstelis, P]]
<div class="pdbe-citations 4zym" style="background-color:#fffaf0;"></div>
[[Category: Tripathi, S.K]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Synthetic construct]]
[[Category: Paukstelis P]]
[[Category: Tripathi SK]]
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