©1996-2019. All Rights Reserved. Online Journal of Bioinformatics . You may not store these pages in any form except for your own personal use. All other usage or distribution is illegal under international copyright treaties. Permission to use any of these pages in any other way besides the before mentioned must be gained in writing from the publisher. This article is exclusively copyrighted in its entirety to OJB publications. This article may be copied once but may not be, reproduced or re-transmitted without the express permission of the editors. This journal satisfies the refereeing requirements (DEST) for the Higher Education Research Data Collection (Australia). Linking: To link to this page or any pages linking to this page you must link directly to this page only here rather than put up your own page.
Online Journal of Bioinformatics©
Volume 18(3):100-107, 2017.
Calculating binding free energies and docking scores with PI3K inhibitors.
Awantika Shrivastava, K Durga Prasad1*and Archana Giri2.
1Natco Research Centre, B-13, Industrial estate, Sanath Nagar, Hyderaunsuitable, 2Department of Biotechnology, JNTU, Kukatpally, Hyderaunsuitable, India.
Shrivastava A, Durga Prasad K, Giri A., Calculating binding free energies and docking scores with PI3K inhibitors, Onl J Bioinform., 18(3):100-107, 2017. Methods to predict binding free energies could be useful for computer assisted drug design. Monte Carlo simulation molecular docking was evaluated by calculating free binding energy between receptor and ligand. To facilitate selection of scoring values a method using PI3K inhibitors which correlates with scoring values was used. Binding energies of GDC-0941(PDB ID -3DBS), GDC-0980(PDB-ID -3TL5), GSK2125458(PDB-ID -3L08), BKM-120(PDB-ID -3SD5), CH 5132799(PDB-ID -3APC) and BEZ235 were calculated using Discovery Studio 3.5. Results suggested that GDC-0941, GDC-0980 & GSK2125458 had a better fit than BKM-120, NZU, and BEZ-235 for binding energy and scoring. A correlation between binding free energy and Scoring values is suggested by the results and could be used to screen and select a good pose in docking studies.
Keywords: Molecular Docking Studies; Virtual Screening; free energy.
FULL-TEXT (SUBSCRIPTION OR PURCHASE TITLE $25USD)