2hol: Difference between revisions

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New page: left|200px<br /><applet load="2hol" size="350" color="white" frame="true" align="right" spinBox="true" caption="2hol, resolution 2.90Å" /> '''Crystal structure of...
 
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[[Image:2hol.gif|left|200px]]<br /><applet load="2hol" size="350" color="white" frame="true" align="right" spinBox="true"
caption="2hol, resolution 2.90&Aring;" />
'''Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ions'''<br />


==Overview==
==Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ions==
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.
<StructureSection load='2hol' size='340' side='right'caption='[[2hol]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
== Structural highlights ==
<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='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='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'>[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>


==About this Structure==
==See Also==
2HOL is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=BA:'>BA</scene>, <scene name='pdbligand=CA:'>CA</scene>, <scene name='pdbligand=MG:'>MG</scene> and <scene name='pdbligand=TPP:'>TPP</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HOL OCA].
*[[Riboswitch 3D structures|Riboswitch 3D structures]]
 
*[[Ribozyme 3D structures|Ribozyme 3D structures]]
==Reference==
__TOC__
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:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16962976 16962976]
</StructureSection>
[[Category: Protein complex]]
[[Category: Escherichia coli]]
[[Category: Amare, A.R.Ferre-D.]]
[[Category: Large Structures]]
[[Category: Edwards, T.E.]]
[[Category: Edwards TE]]
[[Category: BA]]
[[Category: Ferre-D'Amare AR]]
[[Category: CA]]
[[Category: MG]]
[[Category: TPP]]
[[Category: rna; riboswitch]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jan 29 20:25:33 2008''

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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