Monday, December 22, 2014

Structural Superimposition of Local Sequence Alignment using BioPython

This task was given to me as a homework in one of my courses at the university and I wanted to share my solution as I saw there is no such entry on the Internet.

Objectives here are;
  • Download (two) PDB files automatically from the server
  • Do the pairwise alignment after getting their amino acid sequences
  • Superimpose them and report RMSD
Bio.PDB module from BioPython works very well in this case. It's what I used in this solution.

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