RO.12/02
Module for Academic Year 2011/2012
Semester 1
1.
Module Code and Title
BL5215 Macromolecular X-ray crystallography
2.
Rationale for introducing this module
3.
Brief Module Description
(of Publishable Quality for Handbook /
Prospectus / Bulletin / Websites)
Between 75 – 100 words briefly addressing:
 What are the teaching and learning objectives?
 What are the major topics covered?
 Who are the target students?
Aimed to teach theory and practice of X-ray
crystallography
This module is aimed for all graduate students in
various research institutes, who are aiming to undertake
X-ray crystallographic technique as a major technique
for protein structure determination
4.
Aims and objectives (see Notes for definitions)
5.
(Elaboration of teaching and learning objectives)
Syllabus
(Elaboration of major topics covered)
6.
Assessment
(Please indicate % breakdown of each CA
component and % for Final Examination)
7.
8.
9.
To be offered with effect from
Cross Listing (if applicable)
Prerequisites (if applicable)
10.
Preclusions (if applicable)
11.
Module Lecturer(s) 2
Name(s)/Department(s):
1
Complete theory and practice of 3-D protein structure
determination by X-ray crystallography.
Crystal symmetry (Symmetry elements, point groups,
space groups, reciprocal lattice);
Diffraction (Diffraction principle, interaction of X-rays
and electrons/atoms, Bragg’sLaw, Ewald sphere and
reciprocal lattice, diffraction cones);
Crystallization (Salt-in, Salt-out, suopersaturation, vapor
diffusion, sitting drop, hanging drop and other methods,
crystal size and quality, morphology);
Data collection (X-ray properties, X-ray sources; Laue
picture, monochromatic still picture, rotation picture;
Eulerian geometry, kappa geometry goniostats; four,
three and two circle systems; film, area detectors,
imageplate, CCD);
Structure determination (Molecular replacement (MR),
Multiple
isomorphous
replacement
(MIR),
Multiwavelength anomalous dispersion (MAD) and
direct methods);
Model building (Quality of electron density map with
resolution; solvent flattening and map averaging,
protein geometry and side chain rotomers, model
building programs);
Refinement (Parameters to be refined, parameter –
number of reflections – resolution dependency, block
diagonal matrix refinement, energy minimization
refinement; refinement programs);
Analysis of a structure and presentation (Sources of
errors, Ramachandran plot, structure acceptance,
drawings; Validation and drawing programs)
Tutorials:
Laboratories:
10
Mid-term:
Final Examinations:
60
Others: _Seminar_____________________
10
__Project____________________
10
__Paper writing_______________
10
Total:
100%
2003/2004, Semester I
None
Desirable to have completed the following
undergraduate courses or their equivalent: Biochemical
techniques, Proteins and enzymes, Structural Biology.
None
Kunchithapadam Swaminathan (Coordinator, DBS)
Hai-Wei Song (IMCB)
Terje Dokland (IMCB)
Prasanna Kolatkar (GIS)
12.
13.
Modes of Teaching and Learning
(Lectures, regular tests, Q & A, IVLE, problembased learning)
Basic Reading List
Compulsory reading
Lectures, Practicals, Tutorial, Seminar
X-Ray Structure Determination: A Practical Guide
Stout, G.H. & Jensen, L.H.
Wiley-Interscience, 2nd edition, 1989.
Crystal Structure Analysis for Chemists and Biologists
Glusker, J.P., Lewis, M. & Rossi, M.
John Wiley & Sons, 1994.
Supplementary reading
14.
15.
16.
Maximum Class Size
Modular Credits (MC)
Workload Per Week See below
(The workload for a 4-MC module must add up
to 10 hours per week. E.g. 2 hours lecture;
1 hour tutorial; 7 hours preparatory work)
50
4
Lecture hours per week:
Tutorial hours per week:
Laboratory hours per week:
No. of hours per week for projects, fieldwork,
assignments, etc. :
No. of hours per week for preparatory work 3:
Total hours per week:
2
1
3
2
2
10
Notes: (Please refer to Paper R.205/02A ‘Policy on Modules’)
1
2
3
Aims specify the knowledge and abilities we expect students to acquire.
Objectives are expressed in operational terms and specify what the students will be able to do at the end of the module.
For regular module, at least 2 regular faculty members should be qualified to teach.
No. of hours of preparatory work is the time a student is expected to spend in preparing for tutorials, projects, assignments, etc.