C9925 Introduction to soft matter models of membranes and proteins

Faculty of Science
spring 2012 - acreditation

The information about the term spring 2012 - acreditation is not made public

Extent and Intensity
2/0. Type of Completion: zk (examination).
Teacher(s)
prof. RNDr. Robert Vácha, PhD. (lecturer)
Guaranteed by
prof. RNDr. Jaroslav Koča, DrSc.
National Centre for Biomolecular Research – Faculty of Science
Supplier department: National Centre for Biomolecular Research – Faculty of Science
Prerequisites
Basic knowledge of math
Course Enrolment Limitations
The course is offered to students of any study field.
Course objectives
The course is focused on basic knowledge of proteins and membranes from a soft matter perspective. It covers an overview of coarse-grained models, their approximations and limits in computer simulations. At the end, the lectures will describe a few of the advanced methods of Monte Carlo simulations that are often used in this field.
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) Transport phenomena
  • 9) Langmuir adsorption and grand canonical ensemble
  • 10) Kinetic and Dynamic Monte Carlo
  • 11) Special Monte Carlo moves
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
Assessment methods
written test
Language of instruction
English
Further Comments
The course is taught: every week.
The course is also listed under the following terms Spring 2012, Spring 2013, Spring 2014, Spring 2015, Spring 2016, Spring 2017, spring 2018, Spring 2020, Spring 2022, Spring 2023, Spring 2024.