TABLE 2.
Calculated parameters obtained from docking of different benzimidazole drugs and NZO in the binding pockets within subunit B and D of Tubulin protein.
| Phys. Prop. | S (subunit B) | S (subunit D) | rmsd_refine | E_conf | E_refine |
|---|---|---|---|---|---|
| NZO (docked) | −7.34 | — | 0.95 | 0.64 | −26.68 |
| — | −7.04 | 2.07 | −7.66 | −27.13 | |
| Mebendazole | −7.36 | — | 1.54 | −21.83 | −37.08 |
| — | −7.28 | 1.40 | −20.16 | −37.04 | |
| Albendazole | −7.23 | — | 0.97 | −53.87 | −36.45 |
| — | −6.86 | 1.06 | −40.74 | −30.12 | |
| Ciclobendazole | −6.94 | — | 0.90 | 62.46 | −35.58 |
| — | −6.78 | 1.40 | 63.16 | −32.88 | |
| Fenbendazole | −7.09 | — | 1.71 | −47.42 | −37.47 |
| — | −7.39 | 1.22 | −46.84 | −37.31 | |
| Flubendazole | −7.36 | — | 1.19 | −18.75 | −36.26 |
| — | −7.25 | 1.38 | −3.47 | −34.07 | |
| Oxibendazole | −7.36 | — | 1.12 | −52.05 | −38.65 |
| — | −6.86 | 1.82 | −40.80 | −29.96 | |
| Oxfendazole | −7.31 | — | 2.47 | −28.07 | −38.11 |
| — | −7.55 | 2.03 | −27.11 | −38.19 | |
| Thiabendazole | −4.59 | — | 1.81 | 43.97 | −8.75 |
| — | −4.68 | 0.23 | 39.50 | −11.37 | |
| Bendazole | −5.44 | — | 1.12 | 39.08 | −12.60 |
| — | −5.03 | 1.60 | 43.80 | −6.76 |
S, the score of placement of a compound into the binding pocket of protein; rmsd_refine, the root-mean-squared-deviation (RMSD) between the heavy atoms of the predicted pose (after refinement) and those of the crystal structure (before refinement); E_conf, conformer energy in kcal/mol; E_refine, the score of refinement step of ligand conformer.