BioSIM-Research-Group/vmdMagazine

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Created almost 7 years ago
Updated almost 6 years ago

BioSIM-Research-Group/vmdMagazine

BioSIM-Research-Group

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Visualization can be a motivating way of teaching students about the microscopic world.

vmdStore

The App Store for VMD extensions.

molUP

molUP is a VMD extension that provides a simple manner for loading and saving Gaussian files, and analyze related results.

volArea

VolArea is a plug-in of the widely spread molecular graphics software Visual Molecular Dynamics (VMD), which allows the calculation of the volume as well as the surface area of any chemical structure.

vsLab

VsLab—An implementation for virtual high-throughput screening using AutoDock and VMD.

compASM

Protein-protein interactions play a crucial role in molecular recognition and cellular function. Mapping them, provides important insight on how these structures interact and on how to improve or inhibit their binding.

TargIDe

energySplit

The energySplit is a VMD plugin that splits any molecular system and calculates the energy of each fragment using Molecular Mechanics (AMBER).

selectionManager

VMD is an exceptional program to visualize molecular structures. The main drawback of this software is the learning curve that turns it hard to use by non-expert users.

chemPathTracker

Chem-Path-Tracker is a bioinformatic tool that allows to locate functionally relevant chemical motifs in protein structures.