BIOINFORMATICS TOOLS

Protein Structure Analysis Tools

Protein Structure Modeling

  • Swiss Model – Fully automated protein structure homology-modelling server.
  • Phyre2 – Protein Homology/analogY Recognition Engine V 2.0.
  • SwisDock – A web service to predict the molecular interactions that may occur between a target protein and a small molecule.
  • AutoDock – AutoDock is a suite of automated docking tools.
  • CASP – Protein structure prediction center.
  • Rosetta – The Rosetta software suite includes algorithms for computational modeling and analysis of protein structures. Further, it offers de novo protein design, enzyme design, ligand docking, and structure prediction of biological macromolecules and macromolecular complexes.

Protein 3D Visualization

  • Chimera – a program for the interactive visualization and analysis of molecular structures and related data.
  • ChimeraX – It is the next-generation interactive molecular visualization program.
  • Swiss-PDB Viewer – Application for analyzing several proteins at the same time as well as protein modeling server.
  • PyMol – PyMOL is a molecular visualization system maintained and distributed by Schrödinger.
  • VMD – Molecular visualization program for displaying, animating, and analyzing large biomolecular systems using 3-D graphics and built-in scripting.
  • RasMol – Molecular visualization tool.

Must Read

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Streamlining Drug Discovery with Automated Binding Free Energy Calculations

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