[ DevCourseWeb.com ] Udemy - Learn Docking & Molecular Dynamics Simulation From Scratch

Creation Time	July 9, 2025, 4:17 p.m.
Last Access Time	Oct. 11, 2025, 9:52 p.m.
File Size	3.9 GB
Keywords	Docking Scratch - Udemy DevCourseWeb Simulation Learn From Dynamics Molecular com
Total Requests	15
Total Files	252
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~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/008 Practical-4_ How to Predict 3D Structure Using Modeller (Homology).mp4 267.7 MB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/006 Practical-3_ Fixing Missing Residues Issue With Modeller.mp4 148.9 MB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/009 Practical-5_ How to Use I-TASSER for Prediction of 3D Structure_.mp4 148.5 MB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/003 Practical-1_ How To Download Protein Structure From Protein Databank.mp4 135.4 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/014 Practical-28 Downloading and Preparation of Protein 3D Structure for Docking.mp4 103.3 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/024 Practical-35 (Part-A) Performing Docking Using AutoDock4.mp4 98.0 MB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/004 Practical-2_ Visualization of 3D Structure of Protein Using Pymol.mp4 90.8 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/017 Practical-30 Drawing of Ligand Structure in ChemSketch.mp4 85.6 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/027 Practical-34 Analyzing the Docking Data.mp4 83.4 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/028 Practical-35_ PatchDock; Shape Complementary Docking Program.mp4 80.1 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/020 Practical-33 Setting Grid.mp4 76.1 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/016 Practical-29 Downloading of Ligand 3D Structure from ZINC Database.mp4 73.2 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/018 Practical-31 Preparation of Ligand Molecule for Docking.mp4 64.9 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/009 Practical-40_ Making Complex.mp4 62.5 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/001 Practical-7 Installation of Linux in Windows Environment.mp4 61.0 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/015 Practical-44_ Analysis.mp4 59.7 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/002 Practical-8 Installation of GROMACS.mp4 59.5 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/022 Practical-34 (Part-A) Performing Docking with Vina.mp4 58.4 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/026 Practical-33 Preforming Docking with CB Dock.mp4 57.5 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/008 Practical-39_ Preparation of Ligand Topology File.mp4 52.4 MB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/008 Practical-49_ Preparation of Ligands for Docking.mp4 51.4 MB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/001 What is Protein_.mp4 51.3 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/012 Practical-15 Equilibration Phase-I (Part-A).mp4 50.4 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/010 Practical-13 Ionization Step in Molecular Dynamics Simulation.mp4 50.0 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/008 Practical-11 Creation of Topology File In GROMACS.mp4 49.4 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/011 Practical-14 Energy Minimization (EM) in GROMACS.mp4 48.5 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/009 Practical-12 Solvation of Step in Molecular Dynamics Simulation.mp4 47.6 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/025 Practical-35 (Part-B) Visualization of AutoDock4 Docking Results.mp4 46.9 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/026 Practical-25 Opening of XVG Files in Excel.mp4 46.3 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/011 Practical-42_ Ligand Restrain.mp4 46.0 MB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/007 Practical-48_ Downloading of Thousands of Ligands in One Click.mp4 43.1 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/010 Practical-41_ Solvation, Ionization & Energy Minimization of Complex.mp4 40.1 MB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/010 Practical-6_ Introduction of Alpha-Fold Database and Alpha-Fold Colab.mp4 39.6 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/017 Practical-19 Running Molecular Dynamics Simulation Final Phase.mp4 39.1 MB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/008 Protein Structure Preparation for Molecular Dynamics Simulations.mp4 39.0 MB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/010 Practical-51_ Docking of Ligands with Receptors in Vina.mp4 38.7 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/019 Practical-32 Prediction of Active Site of Protein.mp4 38.7 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/007 Practical-38_ Preparation of Protein Topology File.mp4 38.1 MB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/005 Practical-46_ Installation of Open Babel and Auto-Dock Vina In Linux (Ubuntu).mp4 37.9 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/027 Practical-25.1_ Visualization of MD Trajectory in Pymol.mp4 36.5 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/015 Practical-18 Equilibration Phase-II (Part-B).mp4 35.2 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/010 Theory of Docking Steps-Part-1.mp4 32.5 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/013 Practical-27_ Installation of Ligand Drawing Tools.mp4 31.6 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/013 Practical-44_ Equilibration.mp4 31.2 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/021 Practical-20 Calculation of RMSD.mp4 31.1 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/012 Practical-26 Installation of MGL Tools, Vina, AutoDock4 & Autogrid.mp4 30.0 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/004 Practical-36_ Very First Step; Preparation of Protein and Ligand.mp4 29.9 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/018 Basic Theory of Molecular Dynamics Simulation Data Analysis.mp4 29.4 MB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/006 Practical-47_ Preparation of Protein Receptor for Virtual Screening.mp4 29.4 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/023 Practical-34 (Part-B) Visualization of Vina Docking Data.mp4 28.3 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/005 Practical-9 Creating Folder in Ubuntu For Molecular Dynamics Simulations.mp4 28.1 MB
~Get Your Files Here !/04 - Module 3_ Computer Operating System Used for Molecular Dynamics Simulation/004 Some Basic Commands for Linux Operating System.mp4 26.8 MB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/005 Basic Theory of Molecular Dynamics Simulation (Part-4).mp4 26.4 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/024 Practical-23 Calculation of Total Number of Hydrogen bonds (Hb).mp4 25.8 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/022 Practical-21 Calculation of RMSF.mp4 25.6 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/014 Practical-17 Equilibration Phase-II (Part-A).mp4 25.1 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/013 Practical-16 Equilibration Phase-I (Part-B).mp4 23.6 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/011 Theory of Docking Steps-Part-2.mp4 23.6 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/006 Sampling Algorithms-Part-4.mp4 23.4 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/023 Practical-22 Calculation of Radius of Gyration (Rg).mp4 23.4 MB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/001 Importance of Virtual Screening.mp4 23.3 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/025 Practical-24 Calculation of Solvent Accessible Surface Area (SASA).mp4 23.1 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/014 Practical-44_ Production Phase.mp4 21.9 MB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/002 Basic Theory of Molecular Dynamics Simulation (Part-1).mp4 21.7 MB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/003 Basic Theory of Molecular Dynamics Simulation (Part-2).mp4 20.8 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/016 Understanding md.mdp File Before Final Phase.mp4 20.2 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/001 Biggest Drawback of Conventional Docking Protocol.mp4 20.1 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/020 Bringing the Protein in Center Before Data Analysis.mp4 20.1 MB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/010 Solvation and Ionization of System.mp4 20.0 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/012 Practical-43_ Thermostats.mp4 19.5 MB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/011 Practical-52_ Analysis.mp4 18.8 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/007 Practical-10 Cleaning Protein Structure For Molecular Dynamics Simulations.mp4 18.4 MB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/009 Preparation of Topology File for Molecular Dynamics Simulations.mp4 18.1 MB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/002 Experimental Techniques to Determine 3D Structure of Protein.mp4 17.9 MB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/009 Practical-50_ Setting Grid and Writing of Configuration File.mp4 17.8 MB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/002 Introduction to Virtual Screening.mp4 17.0 MB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/012 Equilibration and Production Phase of Molecular Dynamics Simulation.mp4 16.7 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/015 Issue With Protein Structure Preparation in MGL Tools.mp4 16.6 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/005 Sampling Algorithms-Part-3.mp4 16.4 MB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/005 Fixing the Missing Residues in Protein 3D Structure Downloaded.mp4 16.0 MB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/003 Fundamental Steps of Virtual Screening.mp4 15.9 MB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/004 Basic Theory of Molecular Dynamics Simulation (Part-3).mp4 15.8 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/021 Very Important Step; Be Careful Here.mp4 15.8 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/004 Work Flow of Molecular Dynamics in GROMACS.mp4 15.1 MB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/001 Basic Introduction of Molecular Dynamic Simulations and its Steps.mp4 14.9 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/007 Scoring Algorithms.mp4 14.9 MB
~Get Your Files Here !/04 - Module 3_ Computer Operating System Used for Molecular Dynamics Simulation/002 Features of Linux Operating System.mp4 14.4 MB
~Get Your Files Here !/04 - Module 3_ Computer Operating System Used for Molecular Dynamics Simulation/001 Basic Type of Operating System Available in Market.mp4 14.0 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/005 Practical-37_ Necessary Files Needed For Molecular Dynamics Simulations.mp4 13.4 MB
~Get Your Files Here !/04 - Module 3_ Computer Operating System Used for Molecular Dynamics Simulation/005 What's Next_.mp4 11.7 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/001 Introduction of Docking-Part-1.mp4 11.0 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/002 Introduction of Docking-Part-2.mp4 10.2 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/003 Modules of GROMACS Used in Molecular Dynamics Tutorial.mp4 9.7 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/006 Commands to Run Molecular Dynamics Simulations (For You).mp4 9.3 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/006 Commands to Run Ligand-Protein Molecular Dynamics Simulations.mp4 8.4 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/003 Basic Steps of Protein-Ligand MD Simulations.mp4 8.2 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/009 Basic Steps in Docking Protocol.mp4 8.0 MB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/006 MD (Molecular Dynamics Simulation) Cycle.mp4 7.9 MB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/011 Energy Minimization (EM) of System.mp4 7.7 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/019 Commands for Analysis of Molecular Dynamics Simulation Data.mp4 7.6 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/008 Types of Docking.mp4 6.9 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/003 Sampling Algorithms-Part-1.mp4 5.8 MB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/007 Intro to Protein 3D Structure Prediction.mp4 5.4 MB
~Get Your Files Here !/04 - Module 3_ Computer Operating System Used for Molecular Dynamics Simulation/003 Terminal of Linux Operating System.mp4 5.4 MB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/37727938-pdb-95.pir 4.8 MB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/004 Sampling Algorithms-Part-2.mp4 4.7 MB
~Get Your Files Here !/01 - Important Massage Before Start of The Course/001 Important Massage from Instructors.mp4 4.3 MB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/004 Commands Needed to Run Virtual Screening.mp4 4.1 MB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/007 Basic Steps of Molecular Dynamics Simulations.mp4 3.9 MB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/002 Difference Between Simple MD Simulation Vs Protein-Ligand MD Simulations.mp4 2.9 MB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/37706258-Commands-to-Install-GROMACS-Using-Linux-Terminal.pdf 91.9 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/37706644-Commands-to-run-MD-simulation-of-Protein-in-Water.pdf 87.6 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/37708482-Commands-for-MD-Ligand-Protein-Complex.pdf 82.0 KB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/37713454-Commands-to-Run-Vina-for-Virtual-Screening-in-Linux-Environment.pdf 69.8 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/37707724-Commands-to-Analyze-the-MD-Data.pdf 66.9 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/37708606-Commands-to-Analyze-the-Molecular-Dynamics-Simulation-Data-of-Ligand-Protein-Complex.pdf 64.4 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/37390682-cgenff-charmm2gmx.py 37.0 KB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/008 Practical-4_ How to Predict 3D Structure Using Modeller (Homology)_en.vtt 30.8 KB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/006 Practical-3_ Fixing Missing Residues Issue With Modeller_en.vtt 19.1 KB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/003 Practical-1_ How To Download Protein Structure From Protein Databank_en.vtt 15.5 KB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/009 Practical-5_ How to Use I-TASSER for Prediction of 3D Structure__en.vtt 13.2 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/017 Practical-30 Drawing of Ligand Structure in ChemSketch_en.vtt 13.0 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/014 Practical-28 Downloading and Preparation of Protein 3D Structure for Docking_en.vtt 12.5 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/027 Practical-34 Analyzing the Docking Data_en.vtt 11.3 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/024 Practical-35 (Part-A) Performing Docking Using AutoDock4_en.vtt 10.9 KB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/008 Practical-49_ Preparation of Ligands for Docking_en.vtt 10.2 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/022 Practical-34 (Part-A) Performing Docking with Vina_en.vtt 9.4 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/028 Practical-35_ PatchDock; Shape Complementary Docking Program_en.vtt 9.2 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/018 Practical-31 Preparation of Ligand Molecule for Docking_en.vtt 9.2 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/016 Practical-29 Downloading of Ligand 3D Structure from ZINC Database_en.vtt 8.3 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/026 Practical-33 Preforming Docking with CB Dock_en.vtt 8.1 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/015 Practical-44_ Analysis_en.vtt 8.0 KB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/004 Practical-2_ Visualization of 3D Structure of Protein Using Pymol_en.vtt 8.0 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/020 Practical-33 Setting Grid_en.vtt 7.7 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/009 Practical-40_ Making Complex_en.vtt 7.5 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/010 Practical-13 Ionization Step in Molecular Dynamics Simulation_en.vtt 7.3 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/018 Basic Theory of Molecular Dynamics Simulation Data Analysis_en.vtt 7.2 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/008 Practical-39_ Preparation of Ligand Topology File_en.vtt 7.0 KB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/001 What is Protein__en.vtt 6.9 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/012 Practical-15 Equilibration Phase-I (Part-A)_en.vtt 6.6 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/011 Practical-42_ Ligand Restrain_en.vtt 6.6 KB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/010 Practical-6_ Introduction of Alpha-Fold Database and Alpha-Fold Colab_en.vtt 6.6 KB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/007 Practical-48_ Downloading of Thousands of Ligands in One Click_en.vtt 6.4 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/026 Practical-25 Opening of XVG Files in Excel_en.vtt 6.2 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/008 Practical-11 Creation of Topology File In GROMACS_en.vtt 6.1 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/025 Practical-35 (Part-B) Visualization of AutoDock4 Docking Results_en.vtt 6.1 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/011 Practical-14 Energy Minimization (EM) in GROMACS_en.vtt 6.1 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/002 Practical-8 Installation of GROMACS_en.vtt 5.8 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/009 Practical-12 Solvation of Step in Molecular Dynamics Simulation_en.vtt 5.7 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/012 Practical-26 Installation of MGL Tools, Vina, AutoDock4 & Autogrid_en.vtt 5.6 KB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/010 Practical-51_ Docking of Ligands with Receptors in Vina_en.vtt 5.6 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/010 Practical-41_ Solvation, Ionization & Energy Minimization of Complex_en.vtt 5.4 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/023 Practical-34 (Part-B) Visualization of Vina Docking Data_en.vtt 5.3 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/007 Practical-10 Cleaning Protein Structure For Molecular Dynamics Simulations_en.vtt 5.2 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/001 Practical-7 Installation of Linux in Windows Environment_en.vtt 5.1 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/007 Practical-38_ Preparation of Protein Topology File_en.vtt 5.1 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/004 Work Flow of Molecular Dynamics in GROMACS_en.vtt 5.0 KB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/005 Practical-46_ Installation of Open Babel and Auto-Dock Vina In Linux (Ubuntu)_en.vtt 4.8 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/013 Practical-44_ Equilibration_en.vtt 4.8 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/019 Practical-32 Prediction of Active Site of Protein_en.vtt 4.8 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/017 Practical-19 Running Molecular Dynamics Simulation Final Phase_en.vtt 4.6 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/013 Practical-27_ Installation of Ligand Drawing Tools_en.vtt 4.6 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/027 Practical-25.1_ Visualization of MD Trajectory in Pymol_en.vtt 4.4 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/005 Practical-9 Creating Folder in Ubuntu For Molecular Dynamics Simulations_en.vtt 4.3 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/020 Bringing the Protein in Center Before Data Analysis_en.vtt 4.3 KB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/003 Fundamental Steps of Virtual Screening_en.vtt 4.0 KB
~Get Your Files Here !/04 - Module 3_ Computer Operating System Used for Molecular Dynamics Simulation/004 Some Basic Commands for Linux Operating System_en.vtt 4.0 KB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/003 Basic Theory of Molecular Dynamics Simulation (Part-2)_en.vtt 3.9 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/015 Practical-18 Equilibration Phase-II (Part-B)_en.vtt 3.8 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/010 Theory of Docking Steps-Part-1_en.vtt 3.7 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/021 Practical-20 Calculation of RMSD_en.vtt 3.7 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/006 Sampling Algorithms-Part-4_en.vtt 3.5 KB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/008 Protein Structure Preparation for Molecular Dynamics Simulations_en.vtt 3.4 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/37390690-sort-mol2-bonds.pl 3.4 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/004 Practical-36_ Very First Step; Preparation of Protein and Ligand_en.vtt 3.4 KB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/004 Basic Theory of Molecular Dynamics Simulation (Part-3)_en.vtt 3.4 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/011 Theory of Docking Steps-Part-2_en.vtt 3.3 KB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/002 Introduction to Virtual Screening_en.vtt 3.3 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/024 Practical-23 Calculation of Total Number of Hydrogen bonds (Hb)_en.vtt 3.3 KB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/009 Practical-50_ Setting Grid and Writing of Configuration File_en.vtt 3.3 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/007 Scoring Algorithms_en.vtt 3.2 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/022 Practical-21 Calculation of RMSF_en.vtt 3.1 KB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/006 Practical-47_ Preparation of Protein Receptor for Virtual Screening_en.vtt 3.0 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/003 Modules of GROMACS Used in Molecular Dynamics Tutorial_en.vtt 3.0 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/025 Practical-24 Calculation of Solvent Accessible Surface Area (SASA)_en.vtt 2.9 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/014 Practical-44_ Production Phase_en.vtt 2.9 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/005 Practical-37_ Necessary Files Needed For Molecular Dynamics Simulations_en.vtt 2.9 KB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/005 Fixing the Missing Residues in Protein 3D Structure Downloaded_en.vtt 2.8 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/014 Practical-17 Equilibration Phase-II (Part-A)_en.vtt 2.8 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/023 Practical-22 Calculation of Radius of Gyration (Rg)_en.vtt 2.7 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/37707482-md.mdp 2.7 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/013 Practical-16 Equilibration Phase-I (Part-B)_en.vtt 2.7 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/37390722-npt.mdp 2.7 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/37390700-ie.mdp 2.6 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/37390714-md.mdp 2.6 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/37706768-npt.mdp 2.6 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/012 Practical-43_ Thermostats_en.vtt 2.5 KB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/002 Basic Theory of Molecular Dynamics Simulation (Part-1)_en.vtt 2.5 KB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/009 Preparation of Topology File for Molecular Dynamics Simulations_en.vtt 2.5 KB
~Get Your Files Here !/04 - Module 3_ Computer Operating System Used for Molecular Dynamics Simulation/002 Features of Linux Operating System_en.vtt 2.5 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/37390728-nvt.mdp 2.4 KB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/002 Experimental Techniques to Determine 3D Structure of Protein_en.vtt 2.4 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/016 Understanding md.mdp File Before Final Phase_en.vtt 2.4 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/021 Very Important Step; Be Careful Here_en.vtt 2.4 KB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/006 MD (Molecular Dynamics Simulation) Cycle_en.vtt 2.4 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/37706750-nvt.mdp 2.4 KB
~Get Your Files Here !/04 - Module 3_ Computer Operating System Used for Molecular Dynamics Simulation/001 Basic Type of Operating System Available in Market_en.vtt 2.2 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/015 Issue With Protein Structure Preparation in MGL Tools_en.vtt 2.1 KB
~Get Your Files Here !/04 - Module 3_ Computer Operating System Used for Molecular Dynamics Simulation/005 What's Next__en.vtt 2.1 KB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/005 Basic Theory of Molecular Dynamics Simulation (Part-4)_en.vtt 2.0 KB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/011 Practical-52_ Analysis_en.vtt 1.9 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/008 Types of Docking_en.vtt 1.9 KB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/007 Intro to Protein 3D Structure Prediction_en.vtt 1.8 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/001 Biggest Drawback of Conventional Docking Protocol_en.vtt 1.8 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/009 Basic Steps in Docking Protocol_en.vtt 1.7 KB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/012 Equilibration and Production Phase of Molecular Dynamics Simulation_en.vtt 1.7 KB
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/001 Importance of Virtual Screening_en.vtt 1.6 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/003 Basic Steps of Protein-Ligand MD Simulations_en.vtt 1.6 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/001 Introduction of Docking-Part-1_en.vtt 1.6 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/002 Introduction of Docking-Part-2_en.vtt 1.5 KB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/011 Energy Minimization (EM) of System_en.vtt 1.5 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/006 Commands to Run Molecular Dynamics Simulations (For You)_en.vtt 1.4 KB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/010 Solvation and Ionization of System_en.vtt 1.4 KB
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/001 Basic Introduction of Molecular Dynamic Simulations and its Steps_en.vtt 1.4 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/005 Sampling Algorithms-Part-3_en.vtt 1.3 KB
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/37727946-script1.py 1.3 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/006 Commands to Run Ligand-Protein Molecular Dynamics Simulations_en.vtt 1.2 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/37390692-em.mdp 1.1 KB
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/004 Sampling Algorithms-Part-2_en.vtt 1.1 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/002 Difference Between Simple MD Simulation Vs Protein-Ligand MD Simulations_en.vtt 1.1 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/37706684-ions.mdp 1.0 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/37706700-minim.mdp 1.0 KB
~Get Your Files Here !/05 - Module 4_ Demonstration of MD Simulation of Protein in Water with GROMACS/019 Commands for Analysis of Molecular Dynamics Simulation Data_en.vtt 1.0 KB
~Get Your Files Here !/07 - Module-6_ Molecular Dynamics Simulations of Protein-Ligand Docked Complex/37390704-ions.mdp 1.0 KB
~Get Your Files Here !/04 - Module 3_ Computer Operating System Used for Molecular Dynamics Simulation/003 Terminal of Linux Operating System_en.vtt 1.0 KB
~Get Your Files Here !/01 - Important Massage Before Start of The Course/001 Important Massage from Instructors_en.vtt 908 bytes
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/004 Commands Needed to Run Virtual Screening_en.vtt 834 bytes
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/003 Sampling Algorithms-Part-1_en.vtt 804 bytes
~Get Your Files Here !/03 - Module-2_ Theory of Molecular Dynamics Simulations/007 Basic Steps of Molecular Dynamics Simulations_en.vtt 780 bytes
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/37081170-script3.py 553 bytes
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/37727980-script5.py 527 bytes
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/37727956-script2.py 469 bytes
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/37081164-script2.py 464 bytes
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/37727974-script4.py 410 bytes
~Get Your Files Here !/08 - Module-7_ Virtual Screening of Drugs/37709016-Vina-linux.pl 409 bytes
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/37727968-script3.py 383 bytes
~Get Your Files Here !/Bonus Resources.txt 357 bytes
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/37727940-qseq1.ali 263 bytes
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/37081162-script1.py 240 bytes
Get Bonus Downloads Here.url 182 bytes
~Get Your Files Here !/06 - Module-5_ Fundamentals of Molecular Docking (Theory & Practical)/37707734-conf.txt 182 bytes
~Get Your Files Here !/02 - (Optional) Module-1 Protein Structure Basics & Way to Get Them/37081186-alignmnet.ali 35 bytes

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