Structural effects of spike protein D614G mutation in SARS-CoV-2.
| Autor: | Dokainish HM; Computational Biophysics Research Team, RIKEN Center for Computational Science, Kobe, Hyogo, Japan., Sugita Y; Computational Biophysics Research Team, RIKEN Center for Computational Science, Kobe, Hyogo, Japan; Theoretical Molecular Science Laboratory, RIKEN Cluster for Pioneering Research, Wako, Saitama, Japan; Laboratory for Biomolecular Function Simulation, RIKEN Center for Biosystems Dynamics Research, Kobe, Hyogo, Japan. Electronic address: sugita@riken.jp. |
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| Jazyk: | angličtina |
| Zdroj: | Biophysical journal [Biophys J] 2023 Jul 25; Vol. 122 (14), pp. 2910-2920. Date of Electronic Publication: 2022 Nov 17. |
| DOI: | 10.1016/j.bpj.2022.11.025 |
| Abstrakt: | A single mutation from aspartate to glycine at position 614 has dominated all circulating variants of the severe acute respiratory syndrome coronavirus 2. D614G mutation induces structural changes in the spike (S) protein that strengthen the virus infectivity. Here, we use molecular dynamics simulations to dissect the effects of mutation and 630-loop rigidification on S-protein structure. The introduction of the mutation orders the 630-loop structure and thereby induces global structural changes toward the cryoelectron microscopy structure of the D614G S-protein. The ordered 630-loop weakens local interactions between the 614 th residue and others in contrast to disordered structures in the wild-type protein. The mutation allosterically alters global interactions between receptor-binding domains, forming an asymmetric and mobile down conformation and facilitating transitions toward up conformation. The loss of salt bridge between D614 and K854 upon the mutation generally stabilizes S-protein protomer, including the fusion peptide proximal region that mediates membrane fusion. Understanding the molecular basis of D614G mutation is crucial as it dominates in all variants of concern, including Delta and Omicron. Competing Interests: Declaration of interests The authors declare no competing interests. (Copyright © 2022 Biophysical Society. Published by Elsevier Inc. All rights reserved.) |
| Databáze: | MEDLINE |
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