Structural Analysis of Spike Protein Mutations in the SARS-CoV-2 P.3 Variant
Open accessAbstract
A SARS-CoV-2 lineage designated as P.3 with multiple signature mutations in the Spike protein region was recently reported with cases from the Central Visayas Region of the Philippines. Whole genome sequencing revealed that the 33 samples under this lineage all contain the E484K, N501Y, and P681H Spike mutations previously found in variants of concern (VOC) such as the B.1.351, the P.1 and B.1.1.7 variants first reported in South Africa, Brazil, and the United Kingdom, respectively. The possible implications of the mutations found in the Spike protein of P.3 were analyzed for their potential effects on structure, stability, and molecular surface character. The analysis suggests that these mutations could significantly impact the possible interactions of the Spike protein with the ACE2 receptor and neutralizing antibodies, and warrants further clinical investigation. Some of the mutations affecting the N and C terminal domains may have effects on Spike monomer and trimer stability. This report provides insights on relevant targets for the design of future diagnostics, therapeutics and vaccines against the evolving SARS-CoV-2 variants in the Philippines.
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The Theta variant was first reported in March 2021 in the Philippines and contains 13 lineage-defining mutations including N501Y, E484K, P681H and the NTD deletion at positions 141-143.
“The Theta variant was first reported in March 2021 in the Philippines.It contains 13 lineage-defining mutations including N501Y, E484K, P681H and the NTD deletion at positions 141-143 (refs 155,156 ).”
From The biological and clinical significance of emerging SARS-CoV-2 variants (2021) · cites this paper as [155]
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- Authors
- Bascos, N. A. D., Mirano-Bascos, D., & Saloma, C. P.
- Affiliations
- University of the Philippines Diliman (PH)
- Corresponding author
- Bascos, Neil Andrew D.
- Venue
- bioRxiv (Cold Spring Harbor Laboratory)
- Publisher
- openRxiv
- Published
- 2021-03-08
- OpenAlex
- W3135501652
- Cited by
- 11
- References
- 35
- Citations by year
- 2024: 1 · 2023: 1 · 2022: 1 · 2021: 8
- Type
- posted content
- Language
- en
- Open access
- green
- doi.org
- Locations
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion)
- Topics
- Health Sciences › Medicine › Infectious Diseases › SARS-CoV-2 and COVID-19 Research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › vaccines and immunoinformatics approaches
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Structure and Dynamics
- Keywords
- SARS-CoV-2, spike protein mutations, E484K, N501Y, spike protein structure, ACE2 binding, neutralizing antibodies, molecular surface, Beta variant, P.1 variant, B.1.1.7 variant, COVID-19 variants of concern, Philippines
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