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For studying the global electrical properties, it is practical to replace the full molecular model with a simplified equivalent model.
Simulating the step-response of the molecular model with a given set of protein levels matched the behavior of the phenotypic model with corresponding phenotypic parameters.
In order to fit this data, we coupled the molecular model with a model of variability in protein abundance, adapted from Lovdok et al. (Lovdok et al., 2009; 'Materials and methods').
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The interaction of the metal complexes with DNA was also studied by molecular modeling with special reference to docking.
Initially developed to investigate molecular models with a limited number of atoms, computers now enable investigations of large macromolecular systems with a simulation time reaching the microsecond range.
These components were also assessed using molecular modelling with the aim to study their docking properties on a set of six enzymes used in this study.
Molecular models with good predictive power were derived using a hydrophobic field alone and a combination of steric, hydrophobic, and hydrogen bond acceptor fields of the compounds.
The strategy is based on molecular modeling with generalized distance restraints and experimental validation (salt bridge charge inversion; double cysteine substitution and crosslinking).
Furthermore, combining the molecular modeling with impedance detection, the accuracy, specificity and predictability of the ligands binding to the protein could be improved.
All-atom molecular modeling with decamer model compounds of the polymers and (10,2) and (7,6) SWNTs suggests differences in the π π stacking interaction as the origin of the selectivity.
NA is a Ph.D. candidate at the Medway School of Pharmacy, University of Kent, working in the field of Cheminformatics and molecular modelling with a main focus in the prediction of pharmacokinetic features (transporter binding and volume of distribution).
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