BioGem Blog

DeepView – Swiss-PdbViewer (or SPDBV) is an bioinformatics application that provides a user friendly graphical interface allowing to view and analyze protein and nucleic acid structure. This program is associated with Swiss-Model (an automated homology modeling server running in the Geneva Glaxo Welcome Experimental Research), accessible via the ExPASy web server. Through this application, proteins can be superimposed in order to deduce structural alignments and compare their active sites or any other relevant parts. Amino acid mutations, H-bonds, angles and distances between atoms are easy to obtain thanks to the intuitive graphic and menu interface. Working with these two programs greatly reduces the amount of work necessary to generate models, as it is possible to thread a protein primary sequence onto a 3D template and get an immediate feedback of how well the threaded protein will be accepted by the reference structure before submitting a request to build missing loops and ...

The tutorial bellow explains simple procedure to compile, interpret, and execute Java program in Ubuntu using JDK sofware. Steps to run Java program in Ubuntu: 1. Go to Applications > Accessories > Terminal, to open terminal window. 2. Type the following in command line gedit Add.java 3. Enter the code bellow in the editor. /* Addition of two numbers – Add.java */ import java.io.*; class Add { public static void main(String args[]) { InputStreamReader ISR = new InputStreamReader(System.in); BufferedReader BR = new BufferedReader(ISR); int a = 0, b = 0; try { System.out.print("Enter the first number: "); a = Integer.parseInt(BR.readLine()); System.out.print("Enter the second number: "); b = Integer.parseInt(BR.readLine()); } catch(Exception e) { System.out.println("Check the program."); } System.out.println("Addition of " + a + " + " + b + " is " + (a+b)...