Connect with us

Software

How to install DeepView-Swiss PDB Viewer on Linux?

Avatar

Published

on

DeepView (Swiss-PDB Viewer) [1] is used to analyze multiple proteins simultaneously. Protein structure alignment, active site comparison, amino acid mutations, H-bonds, and other relevant functions can be easily performed using this software [1]. In this article, we will install DeepView on Linux (Ubuntu).

Preparing

At first, update and upgrade your system using the following commands:

$ sudo apt-get update
$ sudo apt-get upgrade

Downloading

Download the software from here or use the command line as shown below:
$ sudo wget http://www.genebee.msu.su/spdbv/program/spdbv37sp5-Linux.tar.gz

Installing

Open a terminal and change to the directory where you have downloaded the software. Let’s say here it is ‘Downloads’.

$ cd Downloads

$ tar xvf spdbv37sp5-Linux.tar

$ ./install.sh

Sometimes, an error may occur regarding the loading of shared libraries, libMesaGL.so.3. These libraries are linked with DeepView which are now called libGL.so.3 and libGLU.so instead of libMesaGL.so and libMesaGLU.so.

If you encounter this error, then make some symbolic links to the old names as shown below: (Locate the libraries in your system, it is assumed here that these libraries are present in /usr/lib/.)

$ ln -s /usr/lib/libGL.so.1.2.0 /usr/lib/libMesaGL.so.3

$ ln -s /usr/lib/libGLU.so.1.2.0 /usr/lib/libMesaGLU.so.3

 

References

  1. Kaplan, W., & Littlejohn, T. G. (2001). Swiss-PDB viewer (deep view). Briefings in bioinformatics2(2), 195-197.

Tariq is founder of Bioinformatics Review and a professional Software Developer at IQL Technologies. His areas of expertise include algorithm design, phylogenetics, MicroArray, Plant Systematics, and genome data analysis. If you have questions, reach out to him via his homepage.

Advertisement
Click to comment

You must be logged in to post a comment Login

Leave a Reply

Software

Tutorial: Basic Bioinformatics Software Installation on Ubuntu (Linux)

Dr. Muniba Faiza

Published

on

Easy Installation of some Basic Bioinformatics Tools/Software

In this article, we are going to install some basic bioinformatics tools on Ubuntu from the repository. These tools include BLAST, HMMER, MUSCLE, MAFFT, several NGS analysis tools, and so on. This will be applicable to Ubuntu 16.04 or above. (more…)

Continue Reading

Drug Discovery

Most widely used tools for drug-drug interaction prediction

Dr. Muniba Faiza

Published

on

Most widely used tools for drug-drug interaction prediction Most widely used tools for drug-drug interaction prediction

Drug-drug interaction is an important method in bioinformatics, especially in the case of treatment of serious diseases such as cancer. It tells us about the drug effect modified by another drug. In this article, we summarize a few useful tools for drug-drug interaction prediction. (more…)

Continue Reading

Software

Most widely used tools for transcription factor binding site prediction

Avatar

Published

on

Most widely used tools for transcription factor binding site prediction

In this article, we summarize the most widely used tools (online/ standalone) for transcription binding site prediction in DNA sequences. (more…)

Continue Reading

LATEST ISSUE

ADVERT

Feedback
Feedback
How Would You Rate the Design of Bioinformatics Review Website?
Do you have any additional comment?
Next
Enter your email if you'd like us to contact you regarding with your feedback.
Back
Submit
Thank you for submitting your feedback!