View source for 2m58


==Structure of 2'-5' AG1 lariat forming ribozyme in its inactive state==
<StructureSection load='2m58' size='340' side='right'caption='[[2m58]]' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2m58]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2M58 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2M58 FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</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=2m58 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2m58 OCA], [https://pdbe.org/2m58 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2m58 RCSB], [https://www.ebi.ac.uk/pdbsum/2m58 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2m58 ProSAT]</span></td></tr>
</table>
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== Publication Abstract from PubMed ==
RNA-catalyzed lariat formation is present in both eukaryotes and prokaryotes. To date we lack structural insights into the catalytic mechanism of lariat-forming ribozymes. Here, we study an artificial 2'-5' AG1 lariat-forming ribozyme that shares the sequence specificity of lariat formation with the pre-mRNA splicing reaction. Using NMR, we solve the structure of the inactive state of the ribozyme in the absence of magnesium. The reaction center 5'-guanosine appears to be part of a helix with an exceptionally widened major groove, while the lariat-forming A48 is looped out at the apex of a pseudoknot. The model of the active state built by mutational analysis, molecular modeling, and small-angle X-ray scattering suggests that A48 is recognized by a conserved adenosine, juxtaposed to the 5'-guanosine in one base-pair step distance, while the G1-N7 coordinates a magnesium ion essential for the activation of the nucleophile. Our findings offer implications for lariat formation in RNA enzymes including the mechanism of the recognition of the branch-site adenosine.

Structural principles of RNA catalysis in a 2'-5' lariat-forming ribozyme.,Carlomagno T, Amata I, Codutti L, Falb M, Fohrer J, Masiewicz P, Simon B J Am Chem Soc. 2013 Mar 20;135(11):4403-11. doi: 10.1021/ja311868t. Epub 2013 Mar, 8. PMID:23472843<ref>PMID:23472843</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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== References ==
<references/>
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</StructureSection>
[[Category: Large Structures]]
[[Category: Synthetic construct]]
[[Category: Amata I]]
[[Category: Carlomagno T]]
[[Category: Codutti L]]
[[Category: Falb M]]
[[Category: Fohrer J]]
[[Category: Simon B]]