structural bioinformatics

This is a podcast and slides of a lecture given on Dec 2, 2011 in the course Phar201 (http://www.sdsc.edu/pb/edu/pharm201/) at the University of California San Diego. The lecture considers the future of structural bioinformatics and biological data more generally.

This is a podcast and slides of a lecture given on Nov 23, 2011 in the course Phar201 (http://www.sdsc.edu/pb/edu/pharm201/) at the University of California San Diego by graduate student Roger Chang. It covers the interface between structural bioinformatics and systems biology form the viewpoint of off-target drug effects and large scale metabolic modeling.

This is a podcast and slides of a lecture given on Nov 02, 2011 in the course Phar201 (http://www.sdsc.edu/pb/edu/pharm201/) at the University of California San Diego by Prof. Phil Bourne. It covers some aspects of protein ligand interactions with emphasis on SMAP for determining similar ligand binding sites and the pharmacological implications.

This is a podcast and slides of a lecture given on Nov 16, 2011 in the course Phar201 (http://www.sdsc.edu/pb/edu/pharm201/) at the University of California San Diego by Prof. Phil Bourne. It covers determining domains from 3D protein structure.

This is a podcast and slides of a lecture given on Nov 9, 2011 in the course Phar201 (http://www.sdsc.edu/pb/edu/pharm201/) at the University of California San Diego by Prof. Michael Gilson. It covers structure and ligand based structure methods used in drug discovery.

This is a podcast and slides of a lecture given on Nov 4, 2011 in the course Phar201 (http://www.sdsc.edu/pb/edu/pharm201/) at the University of California San Diego by Phil Bourne. It covers one methodology for determining the site of protein-protein interaction when one only has a single structural component of the complex. It is based on the paper found here http://www.sdsc.edu/pb/papers/chung05.pdf

This is lecture 18 (the final lecture) from a graduate student class in structural bioinformatics offered at UCSD see http://www.sdsc.edu/pb/edu/pharm201/ The lecture covers the a brief discussion of some outstanding problems.

This is lecture 17 from a graduate student class in structural bioinformatics offered at UCSD see http://www.sdsc.edu/pb/edu/pharm201/ The lecture covers the features of protein-protein interactions and one method to predict such interactions.

This is lecture 16 from a graduate student class in structural bioinformatics offered at UCSD see http://www.sdsc.edu/pb/edu/pharm201/ The lecture covers molecular graphics and following a brief introduction is a class discussion of the good and bad features of various molecular graphics programs based on an assignment the class had undertaken. Namely: Render a PDB structure of protein kinase A in two or more of the following tools: jmol, Pymol, Chimera (UCSF), ICM Browser (MolSoft) and...

This is lecture 15 from a graduate student class in structural bioinformatics offered at UCSD see http://www.sdsc.edu/pb/edu/pharm201/ The lecture covers a method for studying protein-ligand interactions. Specifically finding off-target binding sites that has implications for studying the side effects and repositioning existing drugs.