Research Article
Open Access
Rigid and Flexible docking studies on optically pure (R,R)- and (S,S)-1-Phenylpropane-1,2-diamines.
P. Yowan Jeba Raj, T. Vidhyasagar and K. Rajeswari*
Department of Chemistry, Annamalai University, Annamalainagar - 608 002, India
P. Yowan Jeba Raj et al / Int. J. TechnoChem Res. 2016, 2(3), pp 189-201.
Abstract
The mixture of bio-active isomeric candidates, viz., (R,R)- and (S,S)-1-Phenylpropane-1,2
diamines (1-PPDAs) were synthesized and their optical purity were achieved by optimized chiral
transformation. The model chemistry for those (components) were docked with four different receptor
models such as 2CSC, 4CSC, 3EWC and 3EWD. Two different docking modes, viz., Rigid and Flexible
were used for studying the docking interactions using Argus Lab 4.0. The interacting residues and their
different representations were encountered using PyMOL viewer and the Ramachandran’s plots for free
protein model and that with specified interacting residues from the docked receptors (and their back-bone
structure plots for residues) were visualized using Discovery studio software. The hydrophobicity plots
for every successive 5-residue counts were also predicted for the selected receptor models to know their
bio-molecular potency for best docking. The efficiencies towards the docking modes were well predicted.
The overall reports concludes that, the efficiency of the flexible modes were higher than that of the rigid
ones. The drug actions of the ligand candidates with the sarcoma receptors are higher than that of
carcinoma receptors. Interestingly, most of the times, the binding poses for (R,R)-candidates were found
to be higher than that of the other.