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Molecular Dynamics Inc plugin
Plugin, supplied by Molecular Dynamics Inc, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/plugins/plugin/pm42253077-373-19-21
Average 86 stars, based on 1 article reviews
plugin - by Bioz Stars, 2026-09
86/100 stars

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Related Articles

other:

Article Title: Mg 2+ Catalyzes Nonenzymatic RNA Primer Extension through a Concerted Outer-Sphere Mechanism.
Article Snippet: For each stage, a moving harmonic potential of 200 kcal mol−1 Å−2 is applied to the reaction coordinate with PLUgin for MolEcular Dynamics (PLUMED).71 The associated pulling work is documented for each time step.

Article Title: Monovalent cation effects on histidine kinase CheA activity
Article Snippet: The default binning setting of the g(r) plugin with the Visual Molecular Dynamics program was used to create the histograms [100].

Glycoproteomics:

Article Title: Analyses of receptor binding specificity of highly pathogenic avian influenza A (H5N1) viruses isolated from felines in South Korea, 2023
Article Snippet: .. H-bond interactions between the HA protein and the SLN glycan were examined throughout the MD simulation using the “Hydrogen Bonds” plugin available in Visual Molecular Dynamics (VMD) version 1.9.4 [ ]. ..

Diffusion-based Assay:

Article Title: A Molecular View of Methane Activation on Ni(111) through Enhanced Sampling and Machine Learning.
Article Snippet: .. Se e ht tp s: //p ub s. ac s. or g/ sh ar in gg ui de lin es f or o pt io ns o n ho w to le gi tim at el y sh ar e pu bl is he d ar tic le s. simulating large systems or processes requiring extended molecular dynamics simulations.10−12 DFTB has been successfully applied to various chemical systems, including hydrogen bonding properties in organic molecules, reaction mechanisms in biochemical processes, and diffusion on catalytic surfaces.13−15 Recent advancements, such as the integration of DFTB with the Plugin for Molecular Dynamics (PLUMED)16 library for free energy simulations, have further broadened its applicability, allowing for the efficient exploration of complex free energy landscapes. ..



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