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Simulation with quantum mechanics/molecular mechanics for drug discovery

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M Rejwan Ali & Mihaly Mezei. (2021) Observation of quantum signature in rivastigmine chemical bond break-up and quantum energetics, spectral studies of anti-Alzheimer inhibitors. Journal of Biomolecular Structure and Dynamics 39:1, pages 118-128.
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Hai Lin, Yan Zhang, Soroosh Pezeshki, Adam W. Duster, Bo Wang, Xin-Ping Wu, Shi-Wen Zheng, Laura Gagliardi & Donald G. Truhlar. (2024) QMMM 2023: A program for combined quantum mechanical and molecular mechanical modeling and simulations. Computer Physics Communications 295, pages 108987.
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Fan Zhang, Tao Zeng & Ruibo Wu. (2023) QM/MM Modeling Aided Enzyme Engineering in Natural Products Biosynthesis. Journal of Chemical Information and Modeling.
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Saumya Kapoor, Deep Rohan Chatterjee, Moumita Ghosh Chowdhury, Rudradip Das & Amit Shard. (2023) Roadmap to Pyruvate Kinase M2 Modulation - A Computational Chronicle. Current Drug Targets 24:6, pages 464-483.
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Qifeng Bai, Shuo Liu, Yanan Tian, Tingyang Xu, Antonio Jesús Banegas‐Luna, Horacio Pérez‐Sánchez, Junzhou Huang, Huanxiang Liu & Xiaojun Yao. (2021) Application advances of deep learning methods for de novo drug design and molecular dynamics simulation. WIREs Computational Molecular Science 12:3.
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Martina Veit-Acosta & Walter Filgueira de Azevedo Junior. (2022) Computational Prediction of Binding Affinity for CDK2-ligand Complexes. A Protein Target for Cancer Drug Discovery. Current Medicinal Chemistry 29:14, pages 2438-2455.
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Mohammad Kalim Ahmad Khan & Salman Akhtar. (2021) Novel drug design and bioinformatics: an introduction. Physical Sciences Reviews 0:0.
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Shouqin Lü, Qihan Ding, Mingkun Zhang & Mian Long. (2021) Multi-scale molecular dynamics simulations and applications on mechanosensitive proteins of integrins*. Chinese Physics B 30:3, pages 038701.
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Hanene Belkahla, Andrei Alexandru Constantinescu, Tijani Gharbi, Florent Barbault, Alexandre Chevillot-Biraud, Philippe Decorse, Olivier Micheau, Miryana Hémadi & Souad Ammar. (2021) Grafting TRAIL through Either Amino or Carboxylic Groups onto Maghemite Nanoparticles: Influence on Pro-Apoptotic Efficiency. Nanomaterials 11:2, pages 502.
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M. Gabriela Aucar & Claudio N. Cavasotto. 2020. Quantum Mechanics in Drug Discovery. Quantum Mechanics in Drug Discovery 269 284 .
Martin Kotev, Laurie Sarrat & Constantino Diaz Gonzalez. 2020. Quantum Mechanics in Drug Discovery. Quantum Mechanics in Drug Discovery 231 255 .
Christofer S. Tautermann. 2020. Quantum Mechanics in Drug Discovery. Quantum Mechanics in Drug Discovery 1 17 .
Orkid Coskuner & Vladimir N. Uversky. 2019. Dancing protein clouds: Intrinsically disordered proteins in health and disease, Part A. Dancing protein clouds: Intrinsically disordered proteins in health and disease, Part A 145 223 .
Jakub Kollar & Vladimir Frecer. (2018) Diarylcyclopropane hydroxamic acid inhibitors of histone deacetylase 4 designed by combinatorial approach and QM/MM calculations. Journal of Molecular Graphics and Modelling 85, pages 97-110.
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Yueping Wang, Jiangyuan Wang, Peng Zhong, Yiming Li, Christopher Cong Lai & Yanping He. (2018) Molecular insight into the interaction mechanisms of an annulated pyrazole (DB08446) with HIV-1 RT: a QM and QM/QM′ study. Monatshefte für Chemie - Chemical Monthly 149:10, pages 1919-1929.
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Jakub Kollar & Vladimir Frecer. (2017) How accurate is the description of ligand–protein interactions by a hybrid QM/MM approach?. Journal of Molecular Modeling 24:1.
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Yechun Xu, Shanmei Cheng, Joel Sussman, Israel Silman & Hualiang Jiang. (2017) Computational Studies on Acetylcholinesterases. Molecules 22:8, pages 1324.
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Samia Aci-Sèche, Sonia Ziada, Abdennour Braka, Rohit Arora & Pascal Bonnet. (2016) Advanced molecular dynamics simulation methods for kinase drug discovery. Future Medicinal Chemistry 8:5, pages 545-566.
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