C9925 Introduction to soft matter models of membranes and proteins

Faculty of Science
Spring 2013
Extent and Intensity
2/0. 2 credit(s) (plus 1 credit for an exam). Type of Completion: zk (examination).
Teacher(s)
prof. RNDr. Robert Vácha, PhD. (lecturer)
Guaranteed by
prof. RNDr. Robert Vácha, PhD.
National Centre for Biomolecular Research – Faculty of Science
Contact Person: prof. RNDr. Robert Vácha, PhD.
Supplier department: National Centre for Biomolecular Research – Faculty of Science
Timetable
Tue 14:00–15:50 C04/211
Prerequisites
Calculus and physical chemistry at basic university level
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
there are 34 fields of study the course is directly associated with, display
Course objectives
At the end of the course students should be able to: analyze existing coarse grained models or develop a basic new ones; identify a method and level of coarse graining in existing soft matter models; calculate protein-protein, protein-membrane, and membrane-membrane interaction strengths and their distance dependence; understand methods and phenomena in soft matter;
Syllabus
  • 1) Introduction to coarse grained models
  • 2) Ideal chain approximation
  • 3) Ideal thin membrane
  • 4) Interaction of uncharged membrane and proteins
  • 5) Interaction of charged membrane and proteins I
  • 6) Interaction of charged membrane and proteins II
  • 7) Thermodynamic principles of self assembly
  • 8) Langmuir adsorption and grand canonical ensemble
  • 9) Dynamics and transport
  • 10) Advanced Monte Carlo
Literature
  • Intermolecular and Surface Forces 3rd edition by Jacob N. Israelachvili; Academic Press 2010
  • Giant Molecules: Here, There, and Everywhere 2nd edition by Alexander Y. Grosberg et al.; World Scientific Press 2010
  • Soft Condensed Matter Physics in Molecular and Cell Biology by W.C.K. Poon and D. Andelman; Taylor & Francis 2006
Teaching methods
lectures and class discussions
Assessment methods
One multiple choice test - about 20 questions with multiple correct answer possibility. Correct answer is +1 point, wrong answer is -1/2 point. Minimum to pass is 50% of available points.
Language of instruction
English
Further Comments
Study Materials
The course is taught annually.
The course is also listed under the following terms Spring 2012, spring 2012 - acreditation, Spring 2014, Spring 2015, Spring 2016, Spring 2017, spring 2018, Spring 2020, Spring 2022, Spring 2023, Spring 2024.
  • Enrolment Statistics (Spring 2013, recent)
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