VMD data analysis automatization (part2): RMSF and Salt bridges analysis of trajectory Published 2020-10-20 Download video MP4 360p Download video MP4 720p Recommendations 12:44 VMD data analysis automatization (Part3): SASA and H-bonding analysis of trajectory 15:33 VMD data analysis automatization (part1): Load, wrap, align, and calculate RMSD of trajectory 09:33 3. Molecular Dynamic Simulation Result Analysis on Desmond by Simulation Interaction Diagram (SID) 05:40 Salt bridge analysis of a trajectory using VMD 10:00 Movie Making from molecular dynamics simulation with VMD 31:24 Molecular Dynamics Trajectory Analysis using VMD 24:27 EP 12 | Post MD simulation assessment of Protein Ligand Complex in Gromacs | RMSD, RMSF, H-bonds, Rg 03:31 RMSD analysis of trajectory (DCD file) using VMD 08:00 RMSF analysis of trajectory (DCD file) using VMD 01:46 Simulation Interactions Diagram - PL-RMSD (Part 2/8) 07:12 MDtraj Tutorials- (1) Introduction and Installation with Conda 05:31 VMD Image making tutorial 12:53 How to calculate the radius of gyration for a protein using VMD? 33:21 Molecular Dynamics simulations of protein with a ligand using VMD/NAMD- PART-2 04:34 Write LAMMPS Data File with VMD Software 16:41 NAMD Tutorial #1 - Simulation of a Simple Protein 00:28 Generate high resolution images and videos from molecular dynamics simulation with VMD 18:24 Analysis of Molecular Dynamics Simulation Trajectory using VMD plugins without any codes 56:29 Molecular visualization with VMD Similar videos 05:59 MDtraj Tutorials- (5)- RMSF analysis of protein MD trajectory 19:26 Pairwise RMSD analysis of a trajectory by using MDanalysis (Python) 01:55 Simulation Interactions Diagram - Loading Data (Part 1/8) 01:20 Simulation Interactions Diagram - P-RMSF (Part 3/8) 09:02 Using VMD for analyze NAMD Log Files, Hydrogen Bond and RMSD Calculations 24:51 Exercise: Performing Analysis with MDTraj 14:07 VMD RMSD FITTING 00:16 Simple molecular dynamics with LAMMPS and visualization with VMD - molecular art with script 05:14 How to measure the distance between two amino acids in NAMD protien dynamics by using VMD ? 00:52 Simulation Interactions Diagram - L-RMSF (Part 4/8) 07:19 Locating ligand and certain amino acid residues in a complex (Gromacs:VMD) 1:03:16 Intermediate VMD topics - Trajectories, movies, scripting 10:46 Protein design - Salt Bridges 33:28 Mariano Spivak - Advanced visualization, figures and movies in VMD 03:26 The difference between PSF and Topology files. More results