Lecture 7

Structural alignment; Comparative modelling; Side chain modelling

Aims

• To introduce the structural alignment problem.
• To introduce comparative modelling and its main steps.
• To introduce the side chain modelling problem problem.

Objectives

After this lecture you will be able to:

• describe the structural alignment problem;
• discuss the main steps in comparative modelling;
• describe the side chain modelling problem problem.

Supplementary Material

Some of the lecture slides are available on-line (PDF).

Rob Russell has written A Guide to Structure Prediction that includes practical advice and links to useful software.

Principles of Protein Structure, Comparative Protein Modelling and Visualisation has material from an internet course on protein structure and modelling.

ModBase is a database of three-dimensional protein models produced by comparative modelling.

A short discussion of techniques in protein structure prediction, and their applications, is given in:

Baker, D., and Sali, A. (2001) Protein structure prediction and structural genomics. Science, 294, 93-96 (doi:10.1126/science.1065659)