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6ab6

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<SX load='6ab6' size='340' side='right' viewer='molstar' caption='[[6ab6]], [[Resolution|resolution]] 3.50&Aring;' scene=''>
<SX load='6ab6' size='340' side='right' viewer='molstar' caption='[[6ab6]], [[Resolution|resolution]] 3.50&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[6ab6]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Litopenaeus_vannamei_nodavirus Litopenaeus vannamei nodavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AB6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6AB6 FirstGlance]. <br>
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<table><tr><td colspan='2'>[[6ab6]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Penaeus_vannamei_nodavirus Penaeus vannamei nodavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AB6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6AB6 FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 3.5&#8491;</td></tr>
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<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=6ab6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ab6 OCA], [http://pdbe.org/6ab6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ab6 RCSB], [http://www.ebi.ac.uk/pdbsum/6ab6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ab6 ProSAT]</span></td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6ab6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ab6 OCA], [https://pdbe.org/6ab6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ab6 RCSB], [https://www.ebi.ac.uk/pdbsum/6ab6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ab6 ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/A5H7Q8_9VIRU A5H7Q8_9VIRU]
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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.
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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>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 6ab6" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</SX>
</SX>
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Litopenaeus vannamei nodavirus]]
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[[Category: Penaeus vannamei nodavirus]]
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[[Category: Chen, C J]]
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[[Category: Chen CJ]]
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[[Category: Chen, N C]]
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[[Category: Chen NC]]
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[[Category: Guan, H H]]
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[[Category: Guan HH]]
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[[Category: Iwasaki, K]]
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[[Category: Iwasaki K]]
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[[Category: Lin, C C]]
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[[Category: Lin CC]]
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[[Category: Miyazaki, N]]
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[[Category: Miyazaki N]]
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[[Category: Yoshimura, M]]
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[[Category: Yoshimura M]]
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[[Category: Nodaviridae]]
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[[Category: Shrimp nodavirus]]
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[[Category: Virus like particle]]
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Current revision

Cryo-EM structure of T=3 Penaeus vannamei nodavirus

6ab6, resolution 3.50Å

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