Result: All other 11 mutations (N501I, N501S, N501T, N501Y, Q493L, Q493H, A475V, L455F, G446S and K417R) were predicted to have a neutral effect on the protein function.
Result: Contrarily, the variants N501T and Q493K do not have significant effect on the protein structure but change the binding free energy of the complex, with N501T increasing the binding affinity and Q493K decreasing the affinity of the complex.
Result: However, the other mutations N501T
Antibody Cocktail Exhibits Broad Neutralization Activity Against SARS-CoV-2 and SARS-CoV-2 Variants.
Introduction: SARS-CoV-2 variants isolated from minks and mouse harboring mutations G261D, A262S, L452M, Y453F, F486L, Q498H and N501T may cause potential cross-species transmission that worth closely monitor (Thomson et al.; Yao et al.).
Ongoing global and regional adaptive evolution of SARS-CoV-2.
Result: N501T in the same site is of additional concern and has also been observed in mink populations.
Neutralizing Activity of Sera from Sputnik V-Vaccinated People against Variants of Concern (VOC: B.1.1.7, B.1.351, P.1, B.1.617.2, B.1.617.3) and Moscow Endemic SARS-CoV-2 Variants.
Introduction: These mutations are likely to include K417N, L452R, E484K, S494P and N501Y/T, based on molecular dynamics data.
Result: The RBD variability data obtained for SARS-CoV-2 variants from Moscow patients (Figure 2, dashed lines) are generally consistent with the variability data for Russian sequences available in GISAID (Figure 2, solid lines and Figure S1) showing increasing prevalence of S477N, A522S, E484K, N501Y, T385I, S494P, N439K, K417N, T487K
Characterization of SARS-CoV-2 worldwide transmission based on evolutionary dynamics and specific viral mutations in the spike protein.
PMID: 34419160
2021
Infectious diseases of poverty
Table: N501T
Dynamics prediction of emerging notable spike protein mutations in SARS-CoV-2 implies a need for updated vaccines.
Result: Furthermore, the co-mutation set [K417N, T470N, E484K, N501T] that was first found in BR on April 06, 2020, has a BFE change of 0.625 kcal/mol and antibody disruption count 84, is an emerging vaccine breakthrough co-mutation in Brazil.
Result: Second, among the top 25 most observed RBD mutations, T478K, L452Q N440K, L452R, N501Y, N501T, F490S, A475V, and P384L are the 8 most infectious ones judged by their ability to strengthen the binding with ACE2, as shown in Figure 1c.
Spread of Mink SARS-CoV-2 Variants in Humans: A Model of Sarbecovirus Interspecies Evolution.
Introduction: Based on the 3D modeling of the SARS-CoV-2 spike-human ACE2 interactions we visualized the location of amino acids described as major mutation sites in the SARS-CoV-2 variants infecting humans, i.e., the S477N, E484K, and N501Y/T mutations known to characterize the Marseille-4 variant (France), the 20I/501Y.V1 variant (United Kingdom), and the 20H/501Y.V2 variant (South Africa) (Figure 8A, left panel).
Mutational spectra of SARS-CoV-2 isolated from animals.
Abstract: SARS-CoV-2 isolates from minks exhibited two amino acid substitutions (G261D, A262S) in the N-terminal domain of S protein and four (L452M, Y453F, F486L, N501T) in the receptor-binding motif (RBM).
Result: Fifteen unique mutations were identified in mink isolates (Table S2), four of which (L452M, Y453F, F486L, N501T) were located within the RBM of S protein.
Discussion: In our study, all analyzed SARS-CoV-2 from animals had Q493 and N501 except mink isolates which had N501T.
SARS_CoV_2 mutation literature information.
PMID: 
2021
Viruses
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