2ydh: Difference between revisions
New page: '''Unreleased structure''' The entry 2ydh is ON HOLD Authors: Schroeder, K.T., Daldrop, P., Lilley, D.M.J. Description: Crystal structure of the SAM-I riboswitch A94G U34 G18U G19U var... |
No edit summary |
||
| (9 intermediate revisions by the same user not shown) | |||
| Line 1: | Line 1: | ||
The | ==Crystal structure of the SAM-I riboswitch A94G U34 G18U G19U variant in complex with SAM== | ||
<StructureSection load='2ydh' size='340' side='right'caption='[[2ydh]], [[Resolution|resolution]] 2.90Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[2ydh]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Caldanaerobacter_subterraneus_subsp._tengcongensis Caldanaerobacter subterraneus subsp. tengcongensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2YDH FirstGlance]. <br> | |||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BA:BARIUM+ION'>BA</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</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=2ydh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ydh OCA], [https://pdbe.org/2ydh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ydh RCSB], [https://www.ebi.ac.uk/pdbsum/2ydh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ydh ProSAT]</span></td></tr> | |||
</table> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
The kink turn is a widespread RNA motif that introduces an acute kink into the axis of duplex RNA, typically comprising a bulge followed by a GA and AG pairs. The kinked conformation is stabilized by metal ions, or the binding of proteins including L7Ae. We now demonstrate a third mechanism for the stabilization of k-turn structure, involving tertiary interactions within a larger RNA structure. The SAM-I riboswitch contains an essential standard k-turn sequence that kinks a helix so that its terminal loop can make a long-range interaction. We find that some sequence variations in the k-turn within the riboswitch do not prevent SAM binding, despite preventing the folding of the k-turn in isolation. Furthermore, two crystal structures show that the sequence-variant k-turns are conventionally folded within the riboswitch. This study shows that the folded structure of the k-turn can be stabilized by tertiary interactions within a larger RNA structure. | |||
RNA tertiary interactions in a riboswitch stabilize the structure of a kink turn.,Schroeder KT, Daldrop P, Lilley DM Structure. 2011 Sep 7;19(9):1233-40. PMID:21893284<ref>PMID:21893284</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 2ydh" style="background-color:#fffaf0;"></div> | |||
==See Also== | |||
*[[Riboswitch 3D structures|Riboswitch 3D structures]] | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Caldanaerobacter subterraneus subsp. tengcongensis]] | |||
[[Category: Large Structures]] | |||
[[Category: Daldrop P]] | |||
[[Category: Lilley DMJ]] | |||
[[Category: Schroeder KT]] | |||
Latest revision as of 13:50, 20 December 2023
Crystal structure of the SAM-I riboswitch A94G U34 G18U G19U variant in complex with SAMCrystal structure of the SAM-I riboswitch A94G U34 G18U G19U variant in complex with SAM
Structural highlights
Publication Abstract from PubMedThe kink turn is a widespread RNA motif that introduces an acute kink into the axis of duplex RNA, typically comprising a bulge followed by a GA and AG pairs. The kinked conformation is stabilized by metal ions, or the binding of proteins including L7Ae. We now demonstrate a third mechanism for the stabilization of k-turn structure, involving tertiary interactions within a larger RNA structure. The SAM-I riboswitch contains an essential standard k-turn sequence that kinks a helix so that its terminal loop can make a long-range interaction. We find that some sequence variations in the k-turn within the riboswitch do not prevent SAM binding, despite preventing the folding of the k-turn in isolation. Furthermore, two crystal structures show that the sequence-variant k-turns are conventionally folded within the riboswitch. This study shows that the folded structure of the k-turn can be stabilized by tertiary interactions within a larger RNA structure. RNA tertiary interactions in a riboswitch stabilize the structure of a kink turn.,Schroeder KT, Daldrop P, Lilley DM Structure. 2011 Sep 7;19(9):1233-40. PMID:21893284[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
|
| ||||||||||||||||||