Computational Techniques in Structural Bioinformatics
CS 483

Winter 2014
CS483 Assignment #2:
Working with Bond Angles and Interatomic Distances
Due date: Thursday Feb. 6.
Early Bird Due date: Tues. Feb. 4 to get 5 bonus marks.
Marks: (The assignment will be marked out of 75).
Ex. 1: [10], Ex. 2: [6], Ex. 3: [15], Ex. 4: [15]
Computational Techniques in Structural Bioinformatics
CS 483

Winter 2014
CS 483
Assignment 4: Protein Overlap
Due dates: Thurs. Mar. 20. Tues. Mar. 18 (to get 5 bonus marks).
Read the questions carefully and please start early!
Exercise 1:
Implementing the Overlapper class
Motivation
Instead of simply reading in two PDB files
Computational Techniques in Structural Bioinformatics
CS 483

Winter 2014
CS 483
Assignment 5:
Distance Geometry and Residue Networks
Due dates: Thurs. Apr. 3.
Tues. Apr. 1 (to get 6 bonus marks).
Read the questions carefully and please start early!
Exercise 1: Distance Geometry
In this exercise you are to write code that will
Computational Techniques in Structural Bioinformatics
CS 483

Winter 2014
CS483 Assignment #3
Inertial axis, Least squares plane, Project description
Due dates: Thurs. Feb. 27. Tues. Feb. 25 (to get 6 bonus marks).
Exercise 1:
BFactors and flexibility
The BFactor of an atom is linearly related to the mean square displacement
Computational Techniques in Structural Bioinformatics
CS 483

Winter 2014
CS483 Assignment #1
Molecular Visualization and Python
Due date: Thursday Jan. 23 at the start of class.
Hand in on Tuesday Jan. 21 for 5 bonus marks.
General Notes for this and Future Assignments:
Chimera will be used as a workbench for the various assig