In silico analysis of mutant epitopes in new SARS-CoV-2 lineages suggest global enhanced CD8+ T cell reactivity and also signs of immune response escape.
PMID: 35149224
2022
Infection, genetics and evolution
Result: We observed that the nsSNVs P80R, A701V, K417N, K417T, L18F, and R246I had greater antigenicity scores in regard to the REF sequence.
Table: A701V
Conformational Flexibility and Local Frustration in the Functional States of the SARS-CoV-2 Spike B.1.1.7 and B.1.351 Variants: Mutation-Induced Allosteric Modulation Mechanism of Functional Dynamics and Protein Stability.
PMID: 35163572
2022
International journal of molecular sciences
Result: Strikingly, the positions of mutational changes A570D, D614G, T716I, S982A in the S-B.1.1.7 states (Figure 5C,D) and positions D614G and A701V in the S-B.1.351 conformations (Figure 5E,F) are aligned
Result: The increased mobility of mutational sites is particularly apparent in the open state of the S-B.1.351 variant (Figure 3F), where all the modified positions L18F, D80A, D215G, R246I, K417N, E484K, N501Y, D614G, and A701V displayed a significant plasticity.
Misidentification of the SARS-CoV-2 Mu variant using commercial mutation screening assays.
Result: Taken together, the missense mutations, L18F, N501Y, A701V and G1223C seem to have increased the binding affinity of the spike protein, whereas mutations D80A, D215G, K417N, Discussion: In addition, A701V mutation, adjacent to the furin cleavage site of spike protein subunit S1 and S2, in B.1.524 of Malaysian lineage was also found in SARS-CoV-2 beta (B.1.351) strains and SARS-CoV-2 i B.1.526 (USA).
Discussion: Our analysis also suggests, AU.2 is not correlated to B.1.524, as B.1.524 carry different mutations (A701V) in spike protein.
SARS-CoV-2 Beta and Delta variants trigger Fc effector function with increased cross-reactivity.
Method: For ELISA, ADCP and ADCD assays, SARS-CoV-2 original and Beta variant full spike (L18F, D80A, D215G, K417N, E484K, N501Y, D614G, A701V, 242-244 del), RBD original and Beta (K417N, E484K and N501Y, D614G) and NTD original and Beta (L18F, D80A, D215G and 242-244 del) proteins were expressed in Human Embryonic Kidney (HEK) 293F suspension cells by transfecting the cells with the respective expression pl
AstraZeneca COVID-19 vaccine induces robust broadly cross-reactive antibody responses in Malawian adults previously infected with SARS-CoV-2.
Introduction: The beta variant bears genetic changes in the functional domain of the SARS-CoV-2 spike (S) protein including substitutions in the receptor-binding domain (RBD) (E484K, N501Y and K417N), four substitutions and a deletion in N-terminal domain (NTD) (L18F, D80A, D215G, L242H and R246I) and substitutions in S2 (D614G and A701V) regions.
Emergence and phenotypic characterization of the global SARS-CoV-2 C.1.2 lineage.
Method: The SARS-CoV-2 Wuhan-1 spike, cloned into pCDNA3.1, was mutated using the QuikChange Lightning Site-Directed Mutagenesis kit (Agilent Technologies) and NEBuilder HiFi DNA Assembly Master Mix (NEB) to include D614G (wild-type) or lineage defining mutations for Beta (L18F, D80A, D215G, 241-243del, K417N, E484K, N501Y, D614G and A701V), Delta (T19R, 156-157del, R158G, L452R, T478K, D614G, P681R and D950N
Unique peptide signatures of SARS-ComicronV-2 virus against human proteome reveal variants' immune escape and infectiveness.
SARS_CoV_2 mutation literature information.
PMID: 
2022
Science immunology
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