2hol: Difference between revisions

Revision as of 06:31, 4 May 2008

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

OverviewOverview

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.

About this StructureAbout this Structure

Full crystallographic information is available from OCA.

ReferenceReference

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 Page seeded by OCA on Sun May 4 06:31:24 2008

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OCA

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 [[Image:2hol.gif|left|200px]]
- {{Structure
+<!--
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+The line below this paragraph, containing "STRUCTURE_2hol", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=BA:BARIUM+ION'>BA</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
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-|GENE=
+-->
-|DOMAIN=
+{{STRUCTURE_2hol|  PDB=2hol  |  SCENE=  }}
-|RELATEDENTRY=[[2hoj|2HOJ]], [[2hok|2HOK]], [[2hom|2HOM]], [[2hoo|2HOO]], [[2hop|2HOP]]
-|RESOURCES=<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://www.ebi.ac.uk/pdbsum/2hol PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2hol RCSB]</span>
-}}
 '''Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ions'''
@@ Line 19: / Line 16: @@
 ==About this Structure==
-HOL is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HOL OCA].
+Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HOL OCA].
 ==Reference==
 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://www.ncbi.nlm.nih.gov/pubmed/16962976 16962976]
-[[Category: Protein complex]]
 [[Category: Amare, A R.Ferre-D.]]
 [[Category: Edwards, T E.]]
-[[Category: riboswitch]]
+[[Category: Riboswitch]]
-[[Category: rna]]
+[[Category: Rna]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 06:31:24 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 03:33:09 2008''