Structural Bioinformatics

A collection of articles related to three-dimensional structure prediction of macromolecules such as protein, DNA, and RNA.

Tutorial: Basic protein structure modeling using MODELLER


SALI MODELLER [1] is one of the most widely used command-line bioinformatics software for protein structure prediction based on homology modeling. The installation of MODELLER on Ubuntu has already been explained in an article published previously. This article will explain how to perform basic modeling of a protein sequence having a high percent identity with the template. Keep Reading

Methodology for Homology Modeling of a Simple Protein


Previously, we have explained the initial methods involved in the structure prediction of a protein. In that article, we discussed the three basic methods involved in protein structure prediction: Homology modeling, ab-initio, and threading. In this article, we will explain the methodology involved in performing the homology modeling of a simple protein. Keep Reading

How to install DeepView-Swiss PDB Viewer on Linux?


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). Keep Reading

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