2kx8: Difference between revisions
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==NMR structure of stem-loop 4 from the human 7SK snRNA in complex with arginine== | ==NMR structure of stem-loop 4 from the human 7SK snRNA in complex with arginine== | ||
<StructureSection load='2kx8' size='340' side='right'caption='[[2kx8 | <StructureSection load='2kx8' size='340' side='right'caption='[[2kx8]]' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[2kx8]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KX8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KX8 FirstGlance]. <br> | <table><tr><td colspan='2'>[[2kx8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KX8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KX8 FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ARG:ARGININE'>ARG</scene></td></tr> | </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='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ARG:ARGININE'>ARG</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=2kx8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kx8 OCA], [https://pdbe.org/2kx8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kx8 RCSB], [https://www.ebi.ac.uk/pdbsum/2kx8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kx8 ProSAT]</span></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=2kx8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kx8 OCA], [https://pdbe.org/2kx8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kx8 RCSB], [https://www.ebi.ac.uk/pdbsum/2kx8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kx8 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
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__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Homo sapiens]] | |||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: | [[Category: D'Souza VM]] | ||
[[Category: Durney MA]] | |||
[[Category: | |||
Revision as of 20:26, 8 November 2023
NMR structure of stem-loop 4 from the human 7SK snRNA in complex with arginineNMR structure of stem-loop 4 from the human 7SK snRNA in complex with arginine
Structural highlights
Publication Abstract from PubMedThe 7SK small nuclear RNA is a highly conserved non-coding RNA that regulates transcriptional elongation. 7SK utilizes the HEXIM proteins to sequester the transcription factor P-TEFb by a mechanism similar to that used by retroviral TAR RNA to engage Tat and P-TEFb. Tat has also recently been shown to bind 7SK directly and recruit P-TEFb to TAR. We report here the solution structures of the free and arginine-bound forms of stem loop 4 of 7SK (7SK-SL4). Comparison of the 7SK-SL4 and TAR structures demonstrates the presence of a common arginine sandwich motif. However, arginine binding to 7SK-SL4 is mechanistically distinct and occurs via docking into a pre-organized pocket resulting in a 1000-fold increased affinity. Furthermore, whereas formation of the binding pocket in TAR requires a critical base-triple, hydrogen-bond formation between the equivalent bases in 7SK-SL4 is not essential and the pocket is stabilized solely by a pseudo base-triple platform. In addition, this theme of preformed protein binding motifs also extends into the pentaloop. The configuration of the loop suggests that 7SK-SL4 is poised to make ternary contacts with P-TEFb and HEXIM or Tat. These key differences between 7SK-SL4 and TAR present an opportunity to understand RNA structural adaptation and have implications for understanding differential interactions with Tat. Preformed protein-binding motifs in 7SK snRNA: structural and thermodynamic comparisons with retroviral TAR.,Durney MA, D'Souza VM J Mol Biol. 2010 Dec 10;404(4):555-67. Epub 2010 Sep 15. PMID:20816986[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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