PřF:C5845 Advanced Biophys. Chemistry I - Course Information
C5845 Advanced Biophysical Chemistry - Theoretical MethodsFaculty of Science
- Extent and Intensity
- 2/1/0. 3 credit(s) (plus extra credits for completion). Type of Completion: zk (examination).
- prof. RNDr. Libuše Trnková, CSc. (lecturer)
RNDr. Mgr. Jozef Hritz, Ph.D. (lecturer)
Mgr. Jan Novotný, Ph.D. (seminar tutor)
RNDr. Mgr. Iveta Třísková, Ph.D. (seminar tutor)
- Guaranteed by
- prof. RNDr. Libuše Trnková, CSc.
Department of Chemistry - Chemistry Section - Faculty of Science
Supplier department: Department of Chemistry - Chemistry Section - Faculty of Science
- Fri 10:00–12:50 Kontaktujte učitele
- Successful passing the courses: C5850 - Principles of Biophysical Chemistry (lecture) C5855 - Methods of Biophysical Chemistry (lecture) C5856 - Methods of Biophysical Chemistry (seminar)
- Course Enrolment Limitations
- The course is also offered to the students of the fields other than those the course is directly associated with.
- fields of study / plans the course is directly associated with
- Physical Chemistry (programme PřF, N-CH)
- Course objectives
- The aim of this subject is to gain deeper knowledge in biophysical chemistry applicable in biomolecular research. The emphasis is put to the theoretical description of biomolecular systems in solutions by means of physical-statistical and computational methods.
- Learning outcomes
- Students will be able: - to characterize general properties of proteins and nucleic acids in solutions and to describe the fundamental factors that help to stabilize the biomolecules - to apply physico-chemical approaches to study interactions of biomolecular systems from thermodynamic as well as kinetic perspective - to utilize appropriate computational methods to characterize biomolecular systems at atomic level.
- 1.Probability theory (How do molecules “know” they should reach equilibrium?) 2.Equilibrium statistical mechanics (ergodic theory, fluctuations) 3.Biomolecular force-fields parameters and molecular dynamics 4.Enhanced sampling computational simulations (replica exchange molecular dynamics - REMD) 5.Free energy calculations 6.Calculations of potential of mean force (PMF) 7.Solubility and hydrophobicity 8.Binding affinity 9.Conformational and allosteric changes 10.Kinetics of conformational changes 11.Protein folding 12.Phase transitions of proteins (molten-globule state) Literature:  Peter R. Bergethon: The Physical Basis of Biochemistry  Finkelstein and Pittsyn: Protein Physics  Cantor & Schimmel: Biophysical Chemistry, Part I  Zuckerman D.M.: Statistical Physics of Biomolecules
- recommended literature
- CANTOR, Charles R. and Paul R. SCHIMMEL. Biophysical chemistry. New York: W.H. Freeman and Company, 1980. s. i-xxix. ISBN 0716711907. info
- CANTOR, Charles R. and Paul R. SCHIMMEL. Biophysical chemistry. New York: W.H. Freeman and Company, 1980. xxvii, 341. ISBN 0716711885. info
- CANTOR, Charles R. and Paul R. SCHIMMEL. Biophysical chemistry. New York: W.H. Freeman and Company, 1980. s. i-xxix. ISBN 0716711923. info
- Teaching methods
- lecture (2 hours) including computational examples
- Assessment methods
- an exam consisting of written and oral part
- Language of instruction
- Follow-Up Courses
- Further Comments
- Study Materials
The course can also be completed outside the examination period.
The course is taught annually.