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-Structure paper
Title | The atomic structures of shrimp nodaviruses reveal new dimeric spike structures and particle polymorphism. |
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Journal, issue, pages | Commun Biol, Vol. 2, Page 72, Year 2019 |
Publish date | Feb 20, 2019 |
Authors | Nai-Chi Chen / Masato Yoshimura / Naoyuki Miyazaki / Hong-Hsiang Guan / Phimonphan Chuankhayan / Chien-Chih Lin / Shao-Kang Chen / Pei-Ju Lin / Yen-Chieh Huang / Kenji Iwasaki / Atsushi Nakagawa / Sunney I Chan / Chun-Jung Chen / |
PubMed Abstract | Shrimp nodaviruses, including (PvNV) and nodaviruses (MrNV), cause white-tail disease in shrimps, with high mortality. The viral capsid structure determines viral assembly and host specificity ...Shrimp nodaviruses, including (PvNV) and 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 = 3 and = 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 = 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 -terminal arginine-rich motif (N-ARM) interacting with RNA. The N-ARM controls = 3 and = 1 assemblies. Increasing the /-termini flexibility leads to particle polymorphism. Linker flexibility may influence the dimeric-spike arrangement. |
External links | Commun Biol / PubMed:30820467 / PubMed Central |
Methods | EM (single particle) / X-ray diffraction |
Resolution | 1.17 - 3.7 Å |
Structure data | EMDB-6999, PDB-6ab5: EMDB-9576, PDB-6ab6: PDB-5yku: PDB-5ykv: PDB-5ykx: PDB-5ykz: PDB-5yl0: PDB-5yl1: |
Chemicals | ChemComp-ZN: ChemComp-HOH: ChemComp-CD: ChemComp-EPE: ChemComp-SO4: ChemComp-CA: |
Source |
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Keywords | VIRAL PROTEIN / Protrusion domain of viral capsid protein / viral capsid protein / VIRUS LIKE PARTICLE / Nodaviridae / shrimp nodavirus |