The Tutorials in this series are created using Jmol 12.2.2 Jmol v 14.32.80 on Ubuntu 12.04, Ubuntu Linux OS v 20.04. Jmol is an open-source Java viewer for chemical structures and biomolecules in 3D. It does not require 3D acceleration plugins. 3D models created by using Jmol may be used as a teaching tool or for research in chemistry and biochemistry. It is free and open source software, written in Java, it runs on Windows, Mac OS X, Linux and Unix systems. Read more
Foss : Jmol Application - English
Outline: Brief description about Jmol Application. Software requirements. Prerequisites. Open the Jmol Application on Ubuntu/ Linux system. Explain program interface (Menu Bar, Tool b..
Outline: Substitute the hydrogen in molecular model with a functional group. Add and delete bonds Add and delete atoms Pop-up-menu (Contextual menu)
Outline: Rotate, zoom, move and spin the model Modify the view Change the style of the display. Change the size and color of atoms and bonds. Axes and bound box ..
Outline: Create a model of Carboxylic acid. Example, Acetic acid. Create a model of Nitroalkane. Example, Nitroetane. Label atoms in a model with symbol of the element. Label atoms in ..
Outline: About Script Commands. How to write Script commands. How to use Script console. Change display of propane by using script commands. Change the color of atoms and bonds. Change..
Outline: Create models of alicyclic molecules. Example: Cyclohexane. Create models of aromatic molecules. Example: Benzene. Display Surface topology of molecules. Example: Molecular surfa..
Outline: Load chemical structures from chemical structure database (PubChem). Load structure of Phenol and convert it to Para-amino Phenol. Load structure of cholesterol and highlight the..
Outline: * Download CIF (Crystallographic Information File) from Crystallography Open Database (COD). * Open CIF files in Jmol. * Display unit cell and unit cell parameters on Jmol..
Outline: About conformations of 1,2-dichloroethane. Create a model of anti conformer of 1,2-dichloroethane on the Jmol panel. Add elements of your choice in the modelkit menu. Minimize e..
Outline: Load a model of Lactic acid from the database. Assign the R/S configuration using Cahn-Ingold-Prelog priority rules. Append the model of R-Lactic acid using script command. Sepa..
Outline: Load structures of proteins from Protein Data Bank (PDB). Download .pdb files from the database. View the 3D struct..
Outline: Load structure of Hexokinase using PDB code. Modify the display of secondary structure. Highlight amino acid residues at the active site. Highlight the substrate. Highlight the..
Outline: 1. Draw lines (C2 and C3 rotational axes) through atoms in methane molecule. 2. Spin and rotate the molecule along the axis. 3. Draw reflection plane through atoms in methane mo..
Outline: Jmol animation using script commands. Demonstration of animation using ethane and hemoglobin as examples. Script commands with keywords, move, delay, slab, loop and c..
Outline: Load the model of a chemical structure on the Jmol panel. Use JSpecView tool available on the Jmol interface to simulate the 1H NMR of the chemical structure. Show simulated 13C ..
Outline: About important features of JSmol. About steps to create JSmol integrated web page. Download Jmol binary zip file. Extract Jsmol.zip which is present inside the Jmol binary zip..
Outline: Open the HTML text document using gedit text editor. Edit the HTML page to add 3D models of anti, eclipsed and gauche n-butane. Save the HTML page. About the conformations of ..
Foss : Joomla - English
Outline: Concept of Content Management System (CMS) Joomla as a CMS Prerequisites for learning Joomla Software and hardware requirements OS and Joomla version used Glimpse of the follo..
Outline: Prerequisites List of the supporting software - PHP, MySql, Apache with their versions Server Environment Web server distribution - XAMPP, LAMP (link to XAMPP tutorial on spok..