4enb: Difference between revisions
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New page: '''Unreleased structure''' The entry 4enb is ON HOLD Authors: Ren, A.R., Rajashankar, K.R., Patel, D.J. Description: Structure of the fluoride riboswitch reveals F-ion encapsulation by... |
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The | ==Crystal structure of fluoride riboswitch, bound to Iridium== | ||
<StructureSection load='4enb' size='340' side='right'caption='[[4enb]], [[Resolution|resolution]] 2.30Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[4enb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_petrophila Thermotoga petrophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ENB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ENB 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]] 2.302Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=F:FLUORIDE+ION'>F</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=IRI:IRIDIUM+HEXAMMINE+ION'>IRI</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <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=4enb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4enb OCA], [https://pdbe.org/4enb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4enb RCSB], [https://www.ebi.ac.uk/pdbsum/4enb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4enb ProSAT]</span></td></tr> | |||
</table> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Significant advances in our understanding of RNA architecture, folding and recognition have emerged from structure-function studies on riboswitches, non-coding RNAs whose sensing domains bind small ligands and whose adjacent expression platforms contain RNA elements involved in the control of gene regulation. We now report on the ligand-bound structure of the Thermotoga petrophila fluoride riboswitch, which adopts a higher-order RNA architecture stabilized by pseudoknot and long-range reversed Watson-Crick and Hoogsteen A*U pair formation. The bound fluoride ion is encapsulated within the junctional architecture, anchored in place through direct coordination to three Mg(2+) ions, which in turn are octahedrally coordinated to water molecules and five inwardly pointing backbone phosphates. Our structure of the fluoride riboswitch in the bound state shows how RNA can form a binding pocket selective for fluoride, while discriminating against larger halide ions. The T. petrophila fluoride riboswitch probably functions in gene regulation through a transcription termination mechanism. | |||
Fluoride ion encapsulation by Mg2+ ions and phosphates in a fluoride riboswitch.,Ren A, Rajashankar KR, Patel DJ Nature. 2012 May 13;486(7401):85-9. doi: 10.1038/nature11152. PMID:22678284<ref>PMID:22678284</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 4enb" style="background-color:#fffaf0;"></div> | |||
==See Also== | |||
*[[Riboswitch 3D structures|Riboswitch 3D structures]] | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Large Structures]] | |||
[[Category: Thermotoga petrophila]] | |||
[[Category: Patel DJ]] | |||
[[Category: Rajashankar KR]] | |||
[[Category: Ren AM]] | |||
Latest revision as of 10:52, 13 August 2026
Crystal structure of fluoride riboswitch, bound to Iridium
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