4u34: Difference between revisions
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==Crystal Structures of RNA Duplexes Containing 2-thio-Uridine== | ==Crystal Structures of RNA Duplexes Containing 2-thio-Uridine== | ||
<StructureSection load='4u34' size='340' side='right' caption='[[4u34]], [[Resolution|resolution]] 1.35Å' scene=''> | <StructureSection load='4u34' size='340' side='right'caption='[[4u34]], [[Resolution|resolution]] 1.35Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[4u34]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U34 OCA]. For a <b>guided tour on the structure components</b> use [ | <table><tr><td colspan='2'>[[4u34]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U34 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U34 FirstGlance]. <br> | ||
</td></tr><tr><td class="sblockLbl"><b>[[ | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.35Å</td></tr> | ||
<tr><td class="sblockLbl"><b>[[ | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SUR:1-(BETA-D-RIBOFURANOSYL)-2-THIO-URACIL-5-PHOSPHATE'>SUR</scene></td></tr> | ||
<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4u34 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u34 OCA], [https://pdbe.org/4u34 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u34 RCSB], [https://www.ebi.ac.uk/pdbsum/4u34 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u34 ProSAT]</span></td></tr> | ||
<table> | </table> | ||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Structural studies of modified nucleobases in RNA duplexes are critical for developing a full understanding of the stability and specificity of RNA base pairing. 2-Thio-uridine (s2U) is a modified nucleobase found in certain tRNAs. Thermodynamic studies have evaluated the effects of s2U on base pairing in RNA, where it has been shown to stabilize U:A pairs and destabilize U:G wobble pairs. Surprisingly, no high-resolution crystal structures of s2U-containing RNA duplexes have yet been reported. We present here two high-resolution crystal structures of heptamer RNA duplexes (5'-uagcs2Ucc-3' paired with 3'-aucgAgg-5' and with 3'-aucgUgg-5') containing s2U:A and s2U:U pairs, respectively. For comparison, we also present the structures of their native counterparts solved under identical conditions. We found that replacing O2 with S2 stabilizes the U:A base pair without any detectable structural perturbation. In contrast, an s2U:U base pair is strongly stabilized in one specific U:U pairing conformation out of four observed for the native U:U base pair. This s2U:U stabilization appears to be due at least in part to an unexpected sulfur-mediated hydrogen bond. This work provides additional insights into the effects of 2-thio-uridine on RNA base pairing. | |||
Crystal Structure Studies of RNA Duplexes Containing sU:A and sU:U Base Pairs.,Sheng J, Larsen A, Heuberger BD, Blain JC, Szostak JW J Am Chem Soc. 2014 Sep 16. PMID:25188906<ref>PMID:25188906</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 4u34" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: | [[Category: Large Structures]] | ||
[[Category: | [[Category: Synthetic construct]] | ||
[[Category: | [[Category: Blain JC]] | ||
[[Category: | [[Category: Heuberger B]] | ||
[[Category: | [[Category: Larsen A]] | ||
[[Category: | [[Category: Sheng J]] | ||
[[Category: | [[Category: Szostak JW]] | ||
Latest revision as of 07:24, 27 September 2023
Crystal Structures of RNA Duplexes Containing 2-thio-Uridine
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