Table 3. Comparison of the MD Simulation Statistics of the Native CoV2-RdRp and Small Molecule-Bound CoV2-RdRp Complexes for 50 ns.
NAME | RMSD (Å) | RMSF (Å) | SASA (Å2) | H-bonds |
---|---|---|---|---|
native RdRp | 7.5−10 | aa1-aa50: 10–17.5 remaining aa: <10 | 23,000–26,000 | NA |
RdRp-GTP | 5−12.5 | aa1-aa50: 10–20 aa700-aa800: 5 | 40,000–48,000 | 15 (0–5 ns); 8 (6–50 ns) |
RdRp-FIH | 5 | aa1-aa50: 5 remaining aa: <2.5 | 42,000–45,000 | 4 (0–50 ns) |
RdRp-lead | 5−10 | aa1-aa50: 10 remaining aa: <7.5 | 41,000–44,000 | 5 (0–50 ns) |