4y1m: Difference between revisions
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==An Escherichia coli yybP-ykoY Mn riboswitch in the Mn2+-free state== | ==An Escherichia coli yybP-ykoY Mn riboswitch in the Mn2+-free state== | ||
<StructureSection load='4y1m' size='340' side='right' caption='[[4y1m]], [[Resolution|resolution]] 3.00Å' scene=''> | <StructureSection load='4y1m' size='340' side='right' caption='[[4y1m]], [[Resolution|resolution]] 3.00Å' scene=''> | ||
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SR:STRONTIUM+ION'>SR</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SR:STRONTIUM+ION'>SR</scene></td></tr> | ||
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4y1i|4y1i]], [[4y1j|4y1j]]</td></tr> | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4y1i|4y1i]], [[4y1j|4y1j]]</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=4y1m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y1m OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4y1m RCSB], [http://www.ebi.ac.uk/pdbsum/4y1m PDBsum]</span></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=4y1m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y1m OCA], [http://pdbe.org/4y1m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4y1m RCSB], [http://www.ebi.ac.uk/pdbsum/4y1m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4y1m ProSAT]</span></td></tr> | ||
</table> | </table> | ||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
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From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
</div> | </div> | ||
<div class="pdbe-citations 4y1m" style="background-color:#fffaf0;"></div> | |||
==See Also== | |||
*[[Riboswitch|Riboswitch]] | |||
== References == | == References == | ||
<references/> | <references/> | ||
Revision as of 09:39, 26 July 2016
An Escherichia coli yybP-ykoY Mn riboswitch in the Mn2+-free stateAn Escherichia coli yybP-ykoY Mn riboswitch in the Mn2+-free state
Structural highlights
Publication Abstract from PubMedGene regulation in cis by riboswitches is prevalent in bacteria. The yybP-ykoY riboswitch family is quite widespread, yet its ligand and function remained unknown. Here, we characterize the Lactococcus lactis yybP-ykoY orphan riboswitch as a Mn(2+)-dependent transcription-ON riboswitch, with a approximately 30-40 muM affinity for Mn(2+). We further determined its crystal structure at 2.7 A to elucidate the metal sensing mechanism. The riboswitch resembles a hairpin, with two coaxially stacked helices tethered by a four-way junction and a tertiary docking interface. The Mn(2+)-sensing region, strategically located at the highly conserved docking interface, has two metal binding sites. Whereas one site tolerates the binding of either Mg(2+) or Mn(2+), the other site strongly prefers Mn(2+) due to a direct contact from the N7 of an invariable adenosine. Mutagenesis and a Mn(2+)-free E. coli yybP-ykoY structure further reveal that Mn(2+) binding is coupled with stabilization of the Mn(2+)-sensing region and the aptamer domain. Mn(2+)-Sensing Mechanisms of yybP-ykoY Orphan Riboswitches.,Price IR, Gaballa A, Ding F, Helmann JD, Ke A Mol Cell. 2015 Mar 19;57(6):1110-23. doi: 10.1016/j.molcel.2015.02.016. PMID:25794619[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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