Predominance of the SARS-CoV-2 Lineage P.1 and Its Sublineage P.1.2 in Patients from the Metropolitan Region of Porto Alegre, Southern Brazil in March 2021.
Introduction: Since the P.1 variant carries multiple mutations of potential biological significance (especially E484K, K417T, and N501Y in the receptor-binding domain (RBD) of the spike protein): (i) some key substitutions may lead to the immunity e
Result: Fifteen substitutions (10 in the spike protein: L18F, T20N, P26S, D138Y, R190S, K417T, E484K, N501Y, H655Y, and T1027I) are P.1 lineage-defining mutations (Figure 1B and Table 2).
Monitoring SARS-CoV-2 Populations in Wastewater by Amplicon Sequencing and Using the Novel Program SAM Refiner.
Result: Sequences from the RBD amplicon matched reference sequence, lineages B.1.1.7 with '1501T(N501Y) 1709A(A570D)', P.1 with '1250C(K417T) 1450A(E484K) 1501T(N501Y)', or had the single variations of T478K or L452R (Supplementary 11).
Myxobacterial depsipeptide chondramides interrupt SARS-CoV-2 entry by targeting its broad, cell tropic spike protein.
PMID: 34463219
2021
Journal of biomolecular structure & dynamics
Method: Using the same PDB ID, the SARS-CoV-2 variants (N501Y, E484K, K417N/T, A475V,
Result: After determining the binding affinities of the chondramides towards point-mutated SARS-CoV-2 spike variants, the selected compounds were subjected to molecular docking against recently known strains with more than one amino acid substitutions in the spike RBD sequence namely, the South African variant (Wibmer et al.,) (N501Y-E484K-K417N) and the Brazilian variant (Nonaka et al., 2021) (N501Y-E484K-K417T).
Evolution, Mode of Transmission, and Mutational Landscape of Newly Emerging SARS-CoV-2 Variants.
Method: We also used COVID-3D for the structural analysis of significant mutations (E484K, K417T/N, N501Y, and D614G) in emerging variants.
Result: Some significant mutations (E484K, K417T/N, N501Y, and D614G) found in emerging variants and t
Table: K417T
Figure: Structural landscape of the K417T mutation.
Discussion: We have also evaluated the structural landscape of several significant mutations (E484K, K417T/N, N501Y, and D614G) in the emerging variants.
Pseudoephedrine and its derivatives antagonize wild and mutated severe acute respiratory syndrome-CoV-2 viruses through blocking virus invasion and antiinflammatory effect.
Abstract: These mutations were noticed to happen in the receptor-binding domain of spike protein (S-RBD), especially mutations N501Y, E484Q, E484K, K417N, K417T, and L452R.
Introduction: These lineages of viruses have many mutations in receptor-binding domain (RBD) of S1 subunit of SARS-CoV-2, especially mutations N501Y, E484Q, E484K, L452R, K417N, and K417T (Ostrov, ; Verghese et al., ).
Impact of temperature on the affinity of SARS-CoV-2 Spike glycoprotein for host ACE2.
PMID: 34478710
2021
The Journal of biological chemistry
Result: In 2021 sequences, most residues were still found to be >99% conserved except for variations found at residues 417 (K417N, 1.5%; K417T, 2.6%) and 501 (N501Y, 65.2%), with the latter becoming predominant among all the deposited sequences in 2021.
Result: These mutations are found in emergent variants of concern (VOCs), including the B.1.1.7 (N501Y), B.1.351 (K417N/N501Y), and P.1 lineages (K417T/N501Y).
Emergence of SARS-CoV-2 Variant B.1.575.2, Containing the E484K Mutation in the Spike Protein, in Pamplona, Spain, May to June 2021.
PMID: 34495709
2021
Journal of clinical microbiology
Method: At that time, we customized the TaqMan assay to detect SARS-CoV-2 spike protein with the N501Y, E484K, K417N, and K417T mutations.
Possible Link between Higher Transmissibility of Alpha, Kappa and Delta Variants of SARS-CoV-2 and Increased Structural Stability of Its Spike Protein and hACE2 Affinity.
PMID: 34502041
2021
International journal of molecular sciences
Introduction: Similarly, the lineage P.1 (Gamma variant) detected in January 2021 in the Brazilian population had three mutations of concern in spike RBD, namely, N501Y, K417T and E484K.
Dynamics prediction of emerging notable spike protein mutations in SARS-CoV-2 implies a need for updated vaccines.
Introduction: PANGO reports, which are available online, currently include five linages; B.1.1.7 or known as UK linage (N501Y, P681H and other mutations), B.1.351 or known as South Africa linage (501Y.v2), P.1 or known as Brazil linage (E484K, N501Y and K417T), A.23.1 linage (F157L, V367F, Q613H and P681R) and B.1.525 linage (E484K, Q677H, F888L).
Probing the Increased Virulence of Severe Acute Respiratory Syndrome Coronavirus 2 B.1.617 (Indian Variant) From Predicted Spike Protein Structure.
Introduction: Mutations in the Beta and Gamma variants, including E484K and K417N/T, are of high concern since they partly compromise neutralization generated by previous infection or vaccination or affect viral stability.
SARS_CoV_2 mutation literature information.
PMID: 
2021
Pathogens (Basel, Switzerland)
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