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Protocol for hit-to-lead optimization of compounds by auto in silico ligand directing evolution (AILDE) approach.

ABSTRACT: Hit-to-lead (H2L) optimization is crucial for drug design, which has become an increasing concern in medicinal chemistry. A virtual screening strategy of auto in silico ligand directing evolution (AILDE) has been developed to yield promising lead compounds rapidly and efficiently. The protocol includes instructions for fragment compound library construction, conformational sampling by molecular dynamics simulation, ligand modification by fragment growing, as well as the binding free energy prediction. For complete details on the use and execution of this protocol, please refer to Wu et al. (2020).

SUBMITTER: Mei L

PROVIDER: S-EPMC7856476 | biostudies-literature | 2021 Mar

REPOSITORIES: biostudies-literature

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Protocol for hit-to-lead optimization of compounds by auto <i>in silico</i> ligand directing evolution (AILDE) approach.

Mei Longcan L Wu Fengxu F Hao Gefei G Yang Guangfu G

STAR protocols 20210201 1

Hit-to-lead (H2L) optimization is crucial for drug design, which has become an increasing concern in medicinal chemistry. A virtual screening strategy of auto <i>in silico</i> ligand directing evolution (AILDE) has been developed to yield promising lead compounds rapidly and efficiently. The protocol includes instructions for fragment compound library construction, conformational sampling by molecular dynamics simulation, ligand modification by fragment growing, as well as the binding free energ ...[more]

PMID: 33554146

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