bindings – Interfacing external programs

The bindings module contains functions and classes that interface with command-line programs commonly used in bioinformatics.

If you would like to write your own wrapper, consult Using External Programs within OpenStructure.

So far, the binding module includes:

• dssp - Secondary structure assignment
• blast - Search related sequences in databases
• hhblits - Search related sequences in databases
• msms – Calculating Molecular Surfaces
• tmtools - Structural superposition
• clustalw - Perform multiple sequence alignment
• hbplus - Perform hydrogen bond analysis
• kclust - Perform fast and sensitive clustering
• naccess - Calculate accessible area of a molecule
• lga - Find 3D similarities in protein structures
• cadscore - Compare protein structures by difference between physical contacts
• dockq - Evaluate protein-protein interfaces