/kinase_metadynamics

Sequence agnostic CVs for enhancing kinase simulations.

Primary LanguageJupyter NotebookGNU General Public License v3.0GPL-3.0

kinase_metadynamics

Set of sequence agnostic tICs capable of sampling the Chelix and DFG transitions in Tyrosine kinases. tICs optimized using ~1.5ms of BTK trajectories.

The feature space is the closest-heavy atom distances between conserved residues.We are using a sparse version of tICA which only keeps ~5-20% of the total features in determining the coordinate.