View source for 6wzs


==Fusibacterium ulcerans ZTP riboswitch bound to m-1-pyridinyl AICA==
<StructureSection load='6wzs' size='340' side='right'caption='[[6wzs]], [[Resolution|resolution]] 3.23&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[6wzs]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Fusobacterium_ulcerans Fusobacterium ulcerans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WZS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6WZS 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]] 3.23&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=UG4:5-amino-1-(pyridin-3-yl)-1H-imidazole-4-carboxamide'>UG4</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=6wzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wzs OCA], [https://pdbe.org/6wzs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6wzs RCSB], [https://www.ebi.ac.uk/pdbsum/6wzs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6wzs ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Riboswitches are mRNA domains that make gene-regulatory decisions upon binding their cognate ligands. Bacterial riboswitches that specifically recognize 5-aminoimidazole-4-carboxamide riboside 5'-monophosphate (ZMP) and 5'-triphosphate (ZTP) regulate genes involved in folate and purine metabolism. Now, we have developed synthetic ligands targeting ZTP riboswitches by replacing the sugar-phosphate moiety of ZMP with various functional groups, including simple heterocycles. Despite losing hydrogen bonds from ZMP, these analogs bind ZTP riboswitches with similar affinities as the natural ligand, and activate transcription more strongly than ZMP in vitro. The most active ligand stimulates gene expression approximately 3 times more than ZMP in a live Escherichia coli reporter. Co-crystal structures of the Fusobacterium ulcerans ZTP riboswitch bound to synthetic ligands suggest stacking of their pyridine moieties on a conserved RNA nucleobase primarily determines their higher activity. Altogether, these findings guide future design of improved riboswitch activators and yield insights into how RNA-targeted ligand discovery may proceed.

Parallel Discovery Strategies Provide a Basis for Riboswitch Ligand Design.,Tran B, Pichling P, Tenney L, Connelly CM, Moon MH, Ferre-D'Amare AR, Schneekloth JS Jr, Jones CP Cell Chem Biol. 2020 Oct 15;27(10):1241-1249.e4. doi:, 10.1016/j.chembiol.2020.07.021. Epub 2020 Aug 13. PMID:32795418<ref>PMID:32795418</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 6wzs" style="background-color:#fffaf0;"></div>

==See Also==
*[[Riboswitch 3D structures|Riboswitch 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Fusobacterium ulcerans]]
[[Category: Large Structures]]
[[Category: Ferre-D'Amare AR]]
[[Category: Jones CP]]
[[Category: Pichling P]]
[[Category: Tran B]]