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==NMR solution structure of the d3'-stem closed by a GAAA tetraloop of the group II intron Sc.ai5(gamma)==
==NMR solution structure of the d3'-stem closed by a GAAA tetraloop of the group II intron Sc.ai5(gamma)==
<StructureSection load='2k66' size='340' side='right' caption='[[2k66]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
<StructureSection load='2k66' size='340' side='right'caption='[[2k66]]' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[2k66]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K66 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K66 FirstGlance]. <br>
<table><tr><td colspan='2'>[[2k66]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K66 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K66 FirstGlance]. <br>
</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2k64|2k64]], [[2k65|2k65]], [[2k63|2k63]], [[1r2p|1r2p]], [[2aht|2aht]], [[1kxk|1kxk]], [[3bwp|3bwp]]</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='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=2k66 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k66 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k66 RCSB], [http://www.ebi.ac.uk/pdbsum/2k66 PDBsum]</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=2k66 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k66 OCA], [https://pdbe.org/2k66 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k66 RCSB], [https://www.ebi.ac.uk/pdbsum/2k66 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k66 ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
A crucial step of the self-splicing reaction of group II intron ribozymes is the recognition of the 5' exon by the intron. This recognition is achieved by two regions in domain 1 of the intron, the exon-binding sites EBS1 and EBS2 forming base pairs with the intron-binding sites IBS1 and IBS2 located at the end of the 5' exon. The complementarity of the EBS1*IBS1 contact is most important for ensuring site-specific cleavage of the phosphodiester bond between the 5' exon and the intron. Here, we present the NMR solution structures of the d3' hairpin including EBS1 free in solution and bound to the IBS1 7-mer. In the unbound state, EBS1 is part of a flexible 11-nucleotide (nt) loop. Binding of IBS1 restructures and freezes the entire loop region. Mg(2+) ions are bound near the termini of the EBS1*IBS1 helix, stabilizing the interaction. Formation of the 7-bp EBS1*IBS1 helix within a loop of only 11 nt forces the loop backbone to form a sharp turn opposite of the splice site, thereby presenting the scissile phosphate in a position that is structurally unique.
NMR structure of the 5' splice site in the group IIB intron Sc.ai5gamma--conformational requirements for exon-intron recognition.,Kruschel D, Skilandat M, Sigel RK RNA. 2014 Mar;20(3):295-307. doi: 10.1261/rna.041137.113. Epub 2014 Jan 21. PMID:24448450<ref>PMID:24448450</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>


==See Also==
==See Also==
*[[Ribozyme|Ribozyme]]
*[[Ribozyme 3D structures|Ribozyme 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Kruschel, D]]
[[Category: Large Structures]]
[[Category: Sigel, R K.O]]
[[Category: Kruschel D]]
[[Category: D3'-stem]]
[[Category: Sigel RKO]]
[[Category: Gaaa tetraloop]]
[[Category: Group ii intron]]
[[Category: Hairpin]]
[[Category: Ribozyme]]
[[Category: Rna]]
[[Category: Rna 22-mer]]
[[Category: Splicing]]

Latest revision as of 09:44, 1 May 2024

NMR solution structure of the d3'-stem closed by a GAAA tetraloop of the group II intron Sc.ai5(gamma)NMR solution structure of the d3'-stem closed by a GAAA tetraloop of the group II intron Sc.ai5(gamma)

Structural highlights

2k66 is a 1 chain structure. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:Solution NMR
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

See Also

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