Result: Similarly, changes at residues 501 (N501Y in alpha, beta, and gamma; N501T in C.9) and 681 (P681H in alpha, B.1.1.519; P681R in delta; P618L in B.1.494) under positive selection were also found in several distantly related lineages, suggesting that these mutations have an adaptive benefit in host-virus interaction, probably driven by convergent evolution.
Table: N501Y/T
In vitro selection of Remdesivir resistance suggests evolutionary predictability of SARS-CoV-2.
Result: Importantly, in our in vitro passaged viruses we observed both synonymous and non-synonymous substitutions occurring at the same sites within spike (H69R, E484D, N501T, H655Y, P681P) as those identified in the emerging SARS-CoV-2 variants of concern (Alpha (B.1.1.7): Delta69/70, N501Y, P681H; Gamma (P.1): E484K, N501Y, H655Y; Beta (B.1.351): E484K, N501Y) (Fig 4).
Result: Of note are the four spike substitutions which occurred within the receptor binding domain
Evolutionary and codon usage preference insights into spike glycoprotein of SARS-CoV-2.
Abstract: The N501T mutation in SARS-CoV-2-CTD furnishes better support to hotspot 353 in comparison with SARS-CoV and shows higher affinity for receptor binding.
Method: Atomic details at the binding interface exhibit that key residue substitutions (N501T mutation) in the SARS-CoV-2 CTD, compared to the SARS-CoV RBD, reinforce this interaction and lead to receptor binding with higher affinity.
Computational Mutagenesis at the SARS-CoV-2 Spike Protein/Angiotensin-Converting Enzyme 2 Binding Interface: Comparison with Experimental Evidence.
Conclusion: As could be anticipated, most of the studied mutations act as protein-protein interface destabilizers; however, a non-negligible number of mis-sense variations are predicted to enhance ACE2/S-RBDCoV-2 binding; in particular, the variants Q24T, T27D/K/W, D30E, H34S/T/K, E35D, Q42K, L79I/W, R357K, and R393K on ACE2 and L455D/W, F456 K/W, Q493K, N501T, and Y505W on the S-protein receptor binding domain, respectively, are expected to increase the affinity of each mutant isoforms for the corresponding protein counterpart.
Figure: (D) Main interactions involving the S-RBDCoV-2 N501T mutant at the interface with ACE2 as obtained
A novel diagnostic test to screen SARS-CoV-2 variants containing E484K and N501Y mutations.
Introduction: In addition, we discovered a new genotype at the 501-probe binding site from 12 samples (12/971, 1.2%), which thereafter was confirmed to be a N501T (AAT > ACT) mutation in subsequent sequencing.
Introduction: The melting profile of N501T is markedly different from that of WT and N501Y, with a signature Tm of 56.41 +- 0.15 C.
Introduction: This has been well exemplified by our discovery of the N501T and E484Q mutations from the clinical specimens.
Introduction: While our screening efforts were continuing with newly collected March samples, we performed whole-genome sequencing (WGS) with a panel of 74 samples from earlier months representing different genotypes flagged by this screening tool, including 24 E484K, 25 N501Y
Vaccine-escape and fast-growing mutations in the United Kingdom, the United States, Singapore, Spain, India, and other COVID-19-devastated countries.
Abstract: In particular, we discover new fast-growing RBD mutations N439K, S477N, S477R, and N501T that also enhance the RBD and ACE2 binding.
Introduction: We show that in addition to mutations N501Y, E484K, and K417N in the UK, South Africa, and Brazil(ian) variants, L452R, E484Q in the India variants, N439K, S477N, S477R, and N501T are also fast-growing mutations in 31 pandemic-devastated countries in the past few months.
Result: 13 , shows that, in ad
Novel SARS-CoV-2 variants: the pandemics within the pandemic.
PMID: 34015535
2021
Clinical microbiology and infection
4Method: In Brazil, a new lineage, provisionally named ""MG"" (with a suggested designation of P.4, but the designation is still pending) has been identified with N501T and E484Q mutations in Minas Gerais."
Machine Learning Reveals the Critical Interactions for SARS-CoV-2 Spike Protein Binding to ACE2.
PMID: 34086459
2021
The journal of physical chemistry letters
Introduction: As in previous computational and experimental studies, although most mutations from SARS-CoV to SARS-CoV-2 were favorable, there were several exceptions, notably N439R, Q498Y, and N501T.
Introduction: FEP indicates that the SARS-CoV residues are more favorable in both positions, by 4.0 kcal/mol (Q498Y) and 0.7 kcal/mol (N501T).
Table: N501T
SARS-CoV2 spike protein gene variants with N501T and G142D mutation-dominated infections in mink in the United States.
PMID: 34109885
2021
Journal of veterinary diagnostic investigation
Abstract: (173,277) SARS-CoV2 sequences deposited in GISAID from December 2019 to March 12, 2021, and identified 2 dominant novel variants, the N501T-G142D variant and N501T-G142D-F486L variant, in the U.S.
Abstract: The N501T mutation occurred 2 mo earlier in humans than in mink in the United States, and the novel
Table: N501T
Figure: Timeline of emergence of human-derived (above the timeline) and mink-derived (below the timeline) SARS-CoV2 spike protein N501T-G142D and N501T-G142D-F486L variants in the United States.
Bioinformatics Analysis Unveils Certain Mutations Implicated in Spike Structure Damage and Ligand-Binding Site of Severe Acute Respiratory Syndrome Coronavirus 2.
PMID: 34121839
2021
Bioinformatics and biology insights
Result: Although F486L and N501T is not predicted that does not damage the structure of the spike protein (Table 2), it has been stated that the N501T and F486L mutations affect the stability of the spike protein.
SARS_CoV_2 mutation literature information.
PMID: 
2021
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