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==Solution Structure of Domain II of the Positive Polarity CCHMVD Hammerhead Ribozyme==
<StructureSection load='2rpk' size='340' side='right'caption='[[2rpk]]' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2rpk]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RPK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2RPK 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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2rpk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2rpk OCA], [https://pdbe.org/2rpk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2rpk RCSB], [https://www.ebi.ac.uk/pdbsum/2rpk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2rpk ProSAT]</span></td></tr>
</table>
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== Publication Abstract from PubMed ==
Loop-loop tertiary interactions play a key role in the folding and catalytic activity of natural hammerhead ribozymes. Using a combination of NMR spectroscopy, site-directed mutagenesis and kinetic and infectivity analyses, we have examined the structure and function of loops 1 and 2 of the (+) and (-) hammerheads of chrysanthemum chlorotic mottle viroid RNA. In both hammerheads, loop 1 is a heptanucleotide hairpin loop containing an exposed U at its 5' side and an extrahelical U at its 3'-side critical for the catalytic activity of the ribozyme in vitro and for viroid infectivity in vivo, whereas loop 2 has a key opened A at its 3'-side. These structural features promote a specific loop-loop interaction motif across the major groove. The essential features of this tertiary structure element, base pairing between the 5' U of loop 1 and the 3' A of loop 2, and interaction of the extrahelical pyrimidine of loop 1 with loop 2, are likely shared by a significant fraction of natural hammerheads.

Structure-function analysis of the ribozymes of chrysanthemum chlorotic mottle viroid: a loop-loop interaction motif conserved in most natural hammerheads.,Dufour D, de la Pena M, Gago S, Flores R, Gallego J Nucleic Acids Res. 2008 Nov 29. PMID:19043070<ref>PMID:19043070</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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==See Also==
*[[Ribozyme 3D structures|Ribozyme 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Dufour D]]
[[Category: Flores R]]
[[Category: Gago S]]
[[Category: Gallego J]]
[[Category: De la Pena M]]