A multiscale approach to predict the binding mode of metallo beta-lactamase inhibitors.
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"A multiscale approach to predict th..." refers methods in this paper
...from PLANTS derives from the combination of ChemScore and Piecewise Linear Potential (PLP) and includes a specific term to evaluate the coordination interaction,(57) while the AutoDock Vina Energy was calculated from the AutoDock4 scoring function and does not include specific terms for metal coordination.(56) Both these tools were tested with different settings in order to determine the setup that most reliably reproduced the crystal structures of protein-ligand...
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"A multiscale approach to predict th..." refers methods in this paper
...The ligands were prepared in Antechamber with AM1-BCC charges and GAFF as force field,(44) for which benchmarking in agreement with quantum calculation has been reported,(45) while the protein was parameterized using the ff14SB force field.(46) Given the challenges associated with evaluating the interactions between the zinc ions and...
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"A multiscale approach to predict th..." refers background in this paper
...latter mechanism is one of the most important and is most often seen in the form of the hydrolysis of β-lactam antibiotics, catalyzed by serine-β-lactamases (SBLs) and metallo-β-lactamases (MBLs).(3,4) One...
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