2m58: Difference between revisions
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==Structure of 2'-5' AG1 lariat forming ribozyme in its inactive state== | |||
=== | <StructureSection load='2m58' size='340' side='right' caption='[[2m58]], [[NMR_Ensembles_of_Models | 10 NMR models]]' scene=''> | ||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[2m58]] is a 1 chain structure. 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 [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2M58 FirstGlance]. <br> | |||
</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2m58 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2m58 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2m58 RCSB], [http://www.ebi.ac.uk/pdbsum/2m58 PDBsum]</span></td></tr> | |||
</table> | |||
<div style="background-color:#fffaf0;"> | |||
== 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> | |||
[[Category: Amata, I | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
[[Category: Carlomagno, T | </div> | ||
[[Category: Codutti, L | == References == | ||
[[Category: Falb, M | <references/> | ||
[[Category: Fohrer, J | __TOC__ | ||
[[Category: Simon, B | </StructureSection> | ||
[[Category: Amata, I]] | |||
[[Category: Carlomagno, T]] | |||
[[Category: Codutti, L]] | |||
[[Category: Falb, M]] | |||
[[Category: Fohrer, J]] | |||
[[Category: Simon, B]] | |||
[[Category: 2'-5' branching]] | [[Category: 2'-5' branching]] | ||
[[Category: Lariat]] | [[Category: Lariat]] | ||
[[Category: Rna]] | [[Category: Rna]] | ||
