View source for 5yku


==The crystal structure of Macrobrachium rosenbergii nodavirus P-domain with Zn ions==
<StructureSection load='5yku' size='340' side='right'caption='[[5yku]], [[Resolution|resolution]] 1.39&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5yku]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Macrobrachium_rosenbergii_nodavirus Macrobrachium rosenbergii nodavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YKU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YKU 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]] 1.39&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=5yku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yku OCA], [https://pdbe.org/5yku PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yku RCSB], [https://www.ebi.ac.uk/pdbsum/5yku PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yku ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q6XNL3_MRNV Q6XNL3_MRNV] 
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Shrimp nodaviruses, including Penaeus vannamei (PvNV) and Macrobrachium rosenbergii nodaviruses (MrNV), cause white-tail disease in shrimps, with high mortality. The viral capsid structure determines viral assembly and host specificity during infections. Here, we show cryo-EM structures of T = 3 and T = 1 PvNV-like particles (PvNV-LPs), crystal structures of the protrusion-domains (P-domains) of PvNV and MrNV, and the crystal structure of the N-ARM-PvNV shell-domain (S-domain) in T = 1 subviral particles. The capsid protein of PvNV reveals five domains: the P-domain with a new jelly-roll structure forming cuboid-like spikes; the jelly-roll S-domain with two calcium ions; the linker between the S- and P-domains exhibiting new cross and parallel conformations; the N-arm interacting with nucleotides organized along icosahedral two-fold axes; and a disordered region comprising the basic N-terminal arginine-rich motif (N-ARM) interacting with RNA. The N-ARM controls T = 3 and T = 1 assemblies. Increasing the N/C-termini flexibility leads to particle polymorphism. Linker flexibility may influence the dimeric-spike arrangement.

The atomic structures of shrimp nodaviruses reveal new dimeric spike structures and particle polymorphism.,Chen NC, Yoshimura M, Miyazaki N, Guan HH, Chuankhayan P, Lin CC, Chen SK, Lin PJ, Huang YC, Iwasaki K, Nakagawa A, Chan SI, Chen CJ Commun Biol. 2019 Feb 20;2:72. doi: 10.1038/s42003-019-0311-z. eCollection 2019. PMID:30820467<ref>PMID:30820467</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 5yku" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Macrobrachium rosenbergii nodavirus]]
[[Category: Chen CJ]]
[[Category: Chen NC]]
[[Category: Chuankhayan P]]
[[Category: Guan HH]]
[[Category: Lin CC]]
[[Category: Yoshimura M]]