Syllabus for Computational Chemistry for Biological Macromolecules
Beräkningskemi för biologiska makromolekyler
Syllabus
- 10 credits
- Course code: 1KB431
- Education cycle: Second cycle
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Main field(s) of study and in-depth level:
Chemistry A1F
- Grading system: Fail (U), Pass (3), Pass with credit (4), Pass with distinction (5)
- Established: 2019-03-07
- Established by: The Faculty Board of Science and Technology
- Revised: 2022-10-30
- Revised by: The Faculty Board of Science and Technology
- Applies from: Autumn 2023
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Entry requirements:
120 credits including 60 credits in chemistry of which either (1) 10 credits in biochemistry and Biophysical chemistry or (2) 5 credits biochemistry and Chemical Bonding and Computational Chemistry or (3) within the Master's Programme in Chemical Engineering, Biochemistry I, Physical Chemistry and Quantum Mechanics and Chemical Bonding I as well as 5 credits on advanced level. Proficiency in English equivalent to the Swedish upper secondary course English 6.
- Responsible department: Department of Chemistry - BMC
Learning outcomes
On completion of the course, the student should be able to:
- describe the key principles underpinning the most common techniques currently used for simulation of macromolecules
- perform basic simulations of macromolecules, such as classical molecular dynamics and Monte Carlo simulations, and analyse the output to describe biomolecular function
- apply enhanced sampling approaches
- apply multiscale models to describe biochemical reactivity in enzymes
- critically assess and select the appropriate computational tool to tackle a given biochemical problem.
Content
Computational methods to study biomolecular systems. Basic quantum chemistry, statistical thermodynamics, molecular dynamics and Monte Carlo simulations for macromolecular systems, advanced sampling approaches. Statistical analysis, computational enzymology, computational drug design.
Instruction
Lectures, seminars and computer exercises.
Assessment
Written examination (5 credits), exercises and seminars (5 credits).
If there are special reasons for doing so, an examiner may make an exception from the method of assessment indicated and allow a student to be assessed by another method. An example of special reasons might be a certificate regarding special pedagogical support from the disability coordinator of the university.
Reading list
Reading list
Applies from: Autumn 2023
Some titles may be available electronically through the University library.
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Leach, Andrew R.
Molecular modelling : principles and applications
2nd ed.: Harlow: Prentice Hall, 2001