Beyond trial and error: Leveraging advanced software for Therapeutic discovery

Softwares for molecular docking and dynamics

Authors

  • Vanshika Rustagi Deshbandhu College, University of Delhi
  • Shradheya R R Gupta Deshbandhu College, University of Delhi
  • Archana Singh University of Delhi
  • Indrakant K. Singh Deshbandhu College, University of Delhi

DOI:

https://doi.org/10.62110/sciencein.cbl.2025.v12.1251

Keywords:

Schrödinger, Discovery Studio, MOE, Therapeutic, Software, Molecular docking, molecular simulations, molecular dynamics Simulations, AutoDock, AutoDock Vina, Docking Procedure

Abstract

In drug discovery, efficiency and precision are crucial elements that play pivotal roles in saving lives, time, and financial resources while pursuing groundbreaking advancements. To aid this, commercial software platforms are explicitly crafted. These platforms leverage the power of classical with quantum mechanics, machine learning and artificial intelligence to predict molecular behaviours and interactions, moving beyond traditional trial-and-error methods. These approaches fundamentally revolutionize identifying, designing, and optimizing potential drug candidates. This review compares commercial tools such as Discovery Studio, Molecular Operating Environment (MOE) and Schrödinger. Our focus is primarily on Schrödinger due to our hands-on experience on it. In addition to the comparison, we highlight Schrödinger's modules, advantages, achievements, and capacity to streamline the discovery of PROTACs, small molecule inhibitors, and antibodies.

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Author Biographies

  • Vanshika Rustagi, Deshbandhu College, University of Delhi

    Dept. Zoology, Deshbandhu College, University of Delhi

  • Shradheya R R Gupta, Deshbandhu College, University of Delhi

    Dept. Zoology, Deshbandhu College, University of Delhi

  • Archana Singh, University of Delhi

    Department of Plant Molecular Biology, University of Delhi South Campus

  • Indrakant K. Singh, Deshbandhu College, University of Delhi

    Deshbandhu College, University of Delhi

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Published

2024-11-01

Issue

Section

Review Articles

URN

How to Cite

(1)
Rustagi, V.; Gupta, S. R. R.; Singh, A.; Singh, I. K. Beyond Trial and Error: Leveraging Advanced Software for Therapeutic Discovery. Chem Biol Lett 2024, 12 (1), 1251. https://doi.org/10.62110/sciencein.cbl.2025.v12.1251.

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