View source for 6hbt


==The structure of the G. violaceus guanidine II riboswitch P2 stem-loop with arcaine==
<StructureSection load='6hbt' size='340' side='right'caption='[[6hbt]], [[Resolution|resolution]] 1.66&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[6hbt]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HBT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HBT FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FXQ:1-(4-carbamimidamidobutyl)guanidine'>FXQ</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CBV:5-BROMOCYTIDINE+5-(DIHYDROGEN+PHOSPHATE)'>CBV</scene></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=6hbt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hbt OCA], [http://pdbe.org/6hbt PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hbt RCSB], [http://www.ebi.ac.uk/pdbsum/6hbt PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hbt ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
We have designed structure-based ligands for the guanidine-II riboswitch that bind with enhanced affinity, exploiting the twin binding sites created by loop-loop interaction. We synthesized diguanidine species, comprising two guanidino groups covalently connected by Cn linkers where n = 4 or 5. Calorimetric and fluorescent analysis shows that these ligands bind with a ten-fold higher affinity to the riboswitch compared to guanidine. We determined X-ray crystal structures of the riboswitch bound to the new ligands, showing that the guanidino groups are bound to both nucleobases and backbone within the binding pockets, analogously to guanidine binding. The connecting chain passes through side openings in the binding pocket and traverses the minor groove of the RNA. The combination of the riboswitch loop-loop interaction and our novel ligands have potential applications in chemical biology.

Structure-guided design of a high affinity ligand for a riboswitch.,Huang L, Wang J, Wilson TJ, Lilley DMJ RNA. 2019 Jan 4. pii: rna.069567.118. doi: 10.1261/rna.069567.118. PMID:30609994<ref>PMID:30609994</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 6hbt" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Huang, L]]
[[Category: Lilley, D M.J]]
[[Category: Dimer]]
[[Category: Guanidine ii riboswitch]]
[[Category: Rna]]
[[Category: Stem-loop]]
[[Category: Tetra loop]]