6ADT

Structure of Seneca Valley Virus in neutral condition

Summary for 6ADT

• Entry DOI: 10.2210/pdb6adt/pdb
• EMDB information: 9613
• Descriptor: VP1, VP3, VP2, ... (4 entities in total)
• Functional Keywords: virus
• Biological source: Seneca valley virus; More
• Total number of polymer chains: 4
• Total formula weight: 92125.13

Authors

Lou, Z.Y.,Cao, L. (deposition date: 2018-08-02, release date: 2019-02-06, Last modification date: 2024-03-27)

Primary citation

Cao, L.,Zhang, R.,Liu, T.,Sun, Z.,Hu, M.,Sun, Y.,Cheng, L.,Guo, Y.,Fu, S.,Hu, J.,Li, X.,Yu, C.,Wang, H.,Chen, H.,Li, X.,Fry, E.E.,Stuart, D.I.,Qian, P.,Lou, Z.,Rao, Z.
Seneca Valley virus attachment and uncoating mediated by its receptor anthrax toxin receptor 1
Proc. Natl. Acad. Sci. U.S.A., 115:13087-13092, 2018

PubMed Abstract: Seneca Valley virus (SVV) is an oncolytic picornavirus with selective tropism for neuroendocrine cancers. SVV mediates cell entry by attachment to the receptor anthrax toxin receptor 1 (ANTXR1). Here we determine atomic structures of mature SVV particles alone and in complex with ANTXR1 in both neutral and acidic conditions, as well as empty "spent" particles in complex with ANTXR1 in acidic conditions by cryoelectron microscopy. SVV engages ANTXR1 mainly by the VP2 DF and VP1 CD loops, leading to structural changes in the VP1 GH loop and VP3 GH loop, which attenuate interprotomer interactions and destabilize the capsid assembly. Despite lying on the edge of the attachment site, VP2 D146 interacts with the metal ion in ANTXR1 and is required for cell entry. Though the individual substitution of most interacting residues abolishes receptor binding and virus propagation, a serine-to-alanine mutation at VP2 S177 significantly increases SVV proliferation. Acidification of the SVV-ANTXR1 complex results in a major reconfiguration of the pentameric capsid assemblies, which rotate ∼20° around the icosahedral fivefold axes to form a previously uncharacterized spent particle resembling a potential uncoating intermediate with remarkable perforations at both two- and threefold axes. These structures provide high-resolution snapshots of SVV entry, highlighting opportunities for anticancer therapeutic optimization.

PubMed: 30514821
DOI: 10.1073/pnas.1814309115

Experimental method

ELECTRON MICROSCOPY (3.22 Å)