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2qwy

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[[Image:2qwy.jpg|left|200px]]<br /><applet load="2qwy" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2qwy, resolution 2.80&Aring;" />
 
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'''SAM-II riboswitch bound to S-adenosylmethionine'''<br />
 
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==Overview==
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==SAM-II riboswitch bound to S-adenosylmethionine==
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In bacteria, numerous genes harbor regulatory elements in the 5' untranslated regions of their mRNA, termed riboswitches, which control gene expression by binding small-molecule metabolites. These sequences influence the secondary and tertiary structure of the RNA in a ligand-dependent manner, thereby directing its transcription or translation. The crystal structure of an S-adenosylmethionine-responsive riboswitch found predominantly in proteobacteria, SAM-II, has been solved to reveal a second means by which RNA interacts with this important cellular metabolite. Notably, this is the first structure of a complete riboswitch containing all sequences associated with both the ligand binding aptamer domain and the regulatory expression platform. Chemical probing of this RNA in the absence and presence of ligand shows how the structure changes in response to S-adenosylmethionine to sequester the ribosomal binding site and affect translational gene regulation.
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<StructureSection load='2qwy' size='340' side='right'caption='[[2qwy]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2qwy]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QWY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QWY FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.8&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CS:CESIUM+ION'>CS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2qwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qwy OCA], [https://pdbe.org/2qwy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qwy RCSB], [https://www.ebi.ac.uk/pdbsum/2qwy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qwy ProSAT]</span></td></tr>
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</table>
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==About this Structure==
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==See Also==
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2QWY is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=PO4:'>PO4</scene>, <scene name='pdbligand=CS:'>CS</scene>, <scene name='pdbligand=MG:'>MG</scene> and <scene name='pdbligand=SAM:'>SAM</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Known structural/functional Sites: <scene name='pdbsite=AC1:Po4+Binding+Site+For+Residue+A+0'>AC1</scene>, <scene name='pdbsite=AC2:Po4+Binding+Site+For+Residue+B+0'>AC2</scene>, <scene name='pdbsite=AC3:Po4+Binding+Site+For+Residue+B+53'>AC3</scene>, <scene name='pdbsite=AC4:Po4+Binding+Site+For+Residue+C+53'>AC4</scene>, <scene name='pdbsite=AC5:Mg+Binding+Site+For+Residue+A+102'>AC5</scene>, <scene name='pdbsite=AC6:Cs+Binding+Site+For+Residue+A+101'>AC6</scene>, <scene name='pdbsite=AC7:Cs+Binding+Site+For+Residue+C+501'>AC7</scene>, <scene name='pdbsite=AC8:Sam+Binding+Site+For+Residue+A+100'>AC8</scene>, <scene name='pdbsite=AC9:Sam+Binding+Site+For+Residue+B+300'>AC9</scene> and <scene name='pdbsite=BC1:Sam+Binding+Site+For+Residue+C+500'>BC1</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QWY OCA].
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*[[Riboswitch 3D structures|Riboswitch 3D structures]]
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__TOC__
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==Reference==
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</StructureSection>
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Structure of the SAM-II riboswitch bound to S-adenosylmethionine., Gilbert SD, Rambo RP, Van Tyne D, Batey RT, Nat Struct Mol Biol. 2008 Feb;15(2):177-82. Epub 2008 Jan 20. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=18204466 18204466]
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[[Category: Large Structures]]
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[[Category: Single protein]]
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[[Category: Batey RT]]
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[[Category: Batey, R T.]]
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[[Category: Gilbert SD]]
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[[Category: Gilbert, S D.]]
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[[Category: Rambo RP]]
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[[Category: Rambo, R P.]]
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[[Category: Van Tyne D]]
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[[Category: Tyne, D Van.]]
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[[Category: CS]]
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[[Category: MG]]
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[[Category: PO4]]
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[[Category: SAM]]
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[[Category: adomet]]
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[[Category: base triple]]
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[[Category: double helix]]
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[[Category: mrna]]
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[[Category: pseudoknot]]
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[[Category: riboswitch]]
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[[Category: rna-ligand complex]]
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[[Category: s-adenosylmethionine]]
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[[Category: sam]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 18:43:01 2008''
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Current revision

SAM-II riboswitch bound to S-adenosylmethionine

PDB ID 2qwy

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