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. 2014 Apr 10;1:8. doi: 10.3389/fmed.2014.00008

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Copyright © 2014 Chaudhury.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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Predictive bioinformatic analyses shows potential interaction between shank3 and nNOS. Rat proteins (PDB: 3QJN, shank3; 1OM4, nNOS) were queried for interaction using Patchdock. Refinement of solutions was performed using Firedock. Protein interaction predictions were performed based on van der Waals and electrostatic interactions between the 3D structures. Prediction of structural alignment based on lowest energy levels were visualized for ribbons and ball and stick structures using RASMOL and depicted here from different angles. Patchdock software uses surface configurations of folded proteins to predict interactions using computer vision technology (74–76) and is currently being used in neuroinformatics (77).