Table 3.

Protein–ligand interaction profiler (PLIP) analysis for docking results of sofosbuvir against the different clusters of SARS-CoV-2 RdRp

Cluster number	RdRp conformation at	H-bonding		Salt bridges		Hydrophobic interactions
		Number	Amino acids involved	Number	Amino acids involved	Number	Amino acids involved
1	5.9 ns	8	R555(2), K621, R624(2), T680, T687, and D760	3	R555(3)
2	13.7 ns	8	S549, R555(2), Y619, K621, C622, D623, and N691	1	R555
3	18.6 ns	9	S549(2), R555(2), K621, D623, D760, and R836(2)	2	R555(2)
4	9.2 ns	12	Y619(2), K621, C622, D623(2), N691, D760(4), and D761			1	Y619
5	12.7 ns	12	K551, N552, R553(2), R555(2), D618, Y619, K621, D623, R624, and D761	5	K551(2), R555, and K621(2)	1	D760