Binding Energies of Tyrosine Kinase Inhibitors: error assessment of computational methods for imatinib and nilotinib binding Clifford Fong To cite this version: Clifford Fong. Binding Energies of Tyrosine Kinase Inhibitors: error assessment of computational methods for imatinib and nilotinib binding. Computational Biology and Chemistry, Elsevier, 2015, 58, pp.40-54. 10.1016/j.compbiolchem.2015.05.002. hal-01344991 HAL Id: hal-01344991 https://hal.archives-ouvertes.fr/hal-01344991 Submitted on 13 Jul 2016 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Computational Biology and Chemistry, 18 May 2015, doi:10.1016/j.compbiolchem.2015.05.002 Computational Biology and Chemistry 58 (2015) 40–54 Binding Energies of Tyrosine Kinase Inhibitors: error assessment of computational methods for imatinib and nilotinib binding Clifford W. Fong* Eigenenergy, Adelaide, South Australia, Australia * Author to whom correspondence should be addressed; E-Mail:
[email protected] The binding energies of imatinib and nilotinib to tyrosine kinase have been determined by quantum mechanical (QM) computations, and compared with literature binding energy studies using molecular mechanics (MM). The potential errors in the computational methods include these critical factors: Errors in X-ray structures such as structural distortions and steric clashes give unrealistically high van der Waals energies, and erroneous binding energies.