2lvy

<StructureSection load='2lvy' size='340' side='right' caption='[[2lvy]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>

<table><tr><td colspan='2'>[[2lvy]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LVY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2LVY FirstGlance]. <br>

</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UPV:2-O-{[(2,2-DIMETHYLPROPANOYL)OXY]METHYL}URIDINE+5-(DIHYDROGEN+PHOSPHATE)'>UPV</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=2lvy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lvy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2lvy RCSB], [http://www.ebi.ac.uk/pdbsum/2lvy PDBsum]</span></td></tr>

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== Publication Abstract from PubMed ==

The pivaloyloxymethyl (PivOM) group is a biolabile 2'-O-ribose protection that is under development in a prodrug-based approach for siRNA applications. Besides an expected cellular uptake, nucleic acid sequences carrying PivOM showed also increased nuclease resistance and, in most cases, an affinity for complementary RNA. The r(CGCU*ACGC)dT:r(GCGUAGCG)dT model duplex containing a single modified residue (U*) was synthesized and its solution structure was determined by NMR. The duplex showed a maintained A-RNA helix. In U*, both 2'-O-acetal ester side chain and ring pucker presented a notable rigid conformation. The PivOM moiety was oriented with the carbonyl group turned outside the minor groove and with trans, -ac and -ac torsion angles around the C2'-O2', O2'-CA and CA-OB1 bonds respectively. Gauche effects and dipolar interactions between the PivOM and the backbone appeared to be the predominant factors influencing the PivOM conformation and the orientation of the two supplementary H acceptors suggested that hydration could also play a role in the duplex stability.

The biolabile 2'-O-pivaloyloxymethyl modification in an RNA helix: an NMR solution structure.,Baraguey C, Lescrinier E, Lavergne T, Debart F, Herdewijn P, Vasseur JJ Org Biomol Chem. 2013 Apr 28;11(16):2638-47. doi: 10.1039/c3ob27005j. PMID:23455628<ref>PMID:23455628</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>

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== References ==

<references/>

[[Category: Baraguey, C]]

[[Category: Modification]]

[[Category: Rna]]