8dp3: Difference between revisions

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'''Unreleased structure'''


The entry 8dp3 is ON HOLD  until Paper Publication
==Crystal structure of coxsackievirus B3 cloverleaf RNA replication element==
<StructureSection load='8dp3' size='340' side='right'caption='[[8dp3]], [[Resolution|resolution]] 1.91&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[8dp3]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Coxsackievirus_B3 Coxsackievirus B3] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8DP3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8DP3 FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=8dp3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8dp3 OCA], [https://pdbe.org/8dp3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8dp3 RCSB], [https://www.ebi.ac.uk/pdbsum/8dp3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8dp3 ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The extreme 5'-end of the enterovirus RNA genome contains a conserved cloverleaf-like domain that recruits 3CD and PCBP proteins required for initiating genome replication. Here, we report the crystal structure at 1.9 A resolution of this domain from the CVB3 genome in complex with an antibody chaperone. The RNA folds into an antiparallel H-type four-way junction comprising four subdomains with co-axially stacked sA-sD and sB-sC helices. Long-range interactions between a conserved A40 in the sC-loop and Py-Py helix within the sD subdomain organize near-parallel orientations of the sA-sB and sC-sD helices. Our NMR studies confirm that these long-range interactions occur in solution and without the chaperone. The phylogenetic analyses indicate that our crystal structure represents a conserved architecture of enteroviral cloverleaf-like domains, including the A40 and Py-Py interactions. The protein binding studies further suggest that the H-shape architecture provides a ready-made platform to recruit 3CD and PCBP2 for viral replication.


Authors: Das, N.K., Koirala, D.
Crystal structure of a highly conserved enteroviral 5' cloverleaf RNA replication element.,Das NK, Hollmann NM, Vogt J, Sevdalis SE, Banna HA, Ojha M, Koirala D Nat Commun. 2023 Apr 7;14(1):1955. doi: 10.1038/s41467-023-37658-8. PMID:37029118<ref>PMID:37029118</ref>


Description: Crystal structure of coxsackievirus B3 cloverleaf RNA replication element
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
[[Category: Unreleased Structures]]
</div>
[[Category: Koirala, D]]
<div class="pdbe-citations 8dp3" style="background-color:#fffaf0;"></div>
[[Category: Das, N.K]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Coxsackievirus B3]]
[[Category: Large Structures]]
[[Category: Synthetic construct]]
[[Category: Das NK]]
[[Category: Koirala D]]
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