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==Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ions==
==Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ions==
<StructureSection load='2hol' size='340' side='right' caption='[[2hol]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
<StructureSection load='2hol' size='340' side='right'caption='[[2hol]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[2hol]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HOL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HOL FirstGlance]. <br>
<table><tr><td colspan='2'>[[2hol]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HOL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HOL FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BA:BARIUM+ION'>BA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2hoj|2hoj]], [[2hok|2hok]], [[2hom|2hom]], [[2hoo|2hoo]], [[2hop|2hop]]</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BA:BARIUM+ION'>BA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</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=2hol FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hol OCA], [http://pdbe.org/2hol PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2hol RCSB], [http://www.ebi.ac.uk/pdbsum/2hol PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2hol ProSAT]</span></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=2hol FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hol OCA], [https://pdbe.org/2hol PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hol RCSB], [https://www.ebi.ac.uk/pdbsum/2hol PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hol ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Riboswitches are noncoding mRNA elements that bind small-molecule metabolites with high affinity and specificity, and they regulate the expression of associated genes. The thi-box riboswitch can exhibit a 1000-fold higher affinity for thiamine pyrophosphate over closely related noncognate compounds such as thiamine monophosphate. To understand the chemical basis of thi-box pyrophosphate specificity, we have determined crystal structures of an E. coli thi-box bound to thiamine pyrophosphate, thiamine monophosphate, and the structural analogs benfotiamine and pyrithiamine. When bound to monophosphorylated compounds, the RNA elements that recognize the thiamine and phosphate moieties of the ligand move closer together. This allows the riboswitch to recognize the monophosphate in a manner similar to how it recognizes the beta-phosphate of thiamine pyrophosphate. In the pyrithiamine complex, the pyrophosphate binding site is largely unstructured. These results show how the riboswitch can bind to various metabolites, and why the thi-box preferentially binds thiamine pyrophosphate.
Crystal structures of the thi-box riboswitch bound to thiamine pyrophosphate analogs reveal adaptive RNA-small molecule recognition.,Edwards TE, Ferre-D'Amare AR Structure. 2006 Sep;14(9):1459-68. PMID:16962976<ref>PMID:16962976</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 2hol" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[Riboswitch|Riboswitch]]
*[[Riboswitch 3D structures|Riboswitch 3D structures]]
*[[Ribozyme|Ribozyme]]
*[[Ribozyme 3D structures|Ribozyme 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Amare, A R.Ferre-D]]
[[Category: Escherichia coli]]
[[Category: Edwards, T E]]
[[Category: Large Structures]]
[[Category: Riboswitch]]
[[Category: Edwards TE]]
[[Category: Rna]]
[[Category: Ferre-D'Amare AR]]

Latest revision as of 12:33, 14 February 2024

Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ionsCrystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ions

Structural highlights

2hol is a 1 chain structure with sequence from Escherichia coli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.9Å
Ligands:, , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

See Also

2hol, resolution 2.90Å

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