Course syllabus
Molekylära drivkrafter 2: Växelverkan och dynamik
Molecular Driving Forces 2: Interactions and Dynamics
KFKF01, 7,5 credits, G2 (First Cycle)
Valid for: 2012/13
Decided by: Education Board 2
Date of Decision: 2012-04-04
General Information
Main field: Technology.
Compulsory for: B2
Language of instruction: The course will be given in Swedish
Aim
- The aim with this course is to give the students knowledge
about the connection between the intermolecular interactions in a
macroscopic system and the static and dynamic properties of the
system.
Learning outcomes
Knowledge and understanding
For a passing grade the student must
- be able to give a molecular description of the diffusion as
transport phenomenon.
- be able to explain activation energy and detailed balance and
their fundamental relevance in various contexts, such as reaction
kinetics, protein folding and catalysis
- be able to describe and classify the different molecular
properties responsible for the intermolecular interaction.
- have enough knowledge of the electrical potiential to be able
to discuss various phenomena, such as electrochemical equilibria
and ion solvation.
- be able to use and understand the basis for some thermodynamic
models that describe macroscopic phenomena, such as phase
transitions, miscibility gaps, azeotropes, partition coefficients
between different media and the nonideal behaviour of ionic
solutions.
- show fundamental knowledge of the most important physics of
biopolymers, such as cooperative secondary structure formation,
adsorption, bio-catalysis, cooperative ligand binding to proteins
and the hydrophobic interaction.
- be able to describe the mot important properties of liquid
water, such as hydrogen bond structure, the temperature dependence
of the density, the hydrophobic effect and the role played by water
for the thermodynamics of biochemical processes.
- be able to describe the principles of some molecular simulation
methods.
Competences and skills
For a passing grade the student must
- be able to calculate the different contributions to the
interaction between two molecules, such as the mono and dipol
moments, and dispersion forces.
- be able to estimate some phenomena using simple cell-models,
such as phase transitions, destillation, miscibility gaps,
secondary structure formation in proteins and adsorption on
surfaces.
- be able to estimate, both practically and theoretically, the
different contributions to solibility, such as Born solvation and
ion-ion interaction according to the Debye-Hückel equation.
- be able to estimate the effect of diffusion in biochemically
relevant problems, such as diffusion through gels and diffusion
controlled reaction kinetics.
- be able to write simple, but complete, reports of laboratory
experiments.
Judgement and approach
For a passing grade the student must
- be able to discuss biologically relevant problems on the basis
of the fundamental models that are presented in the course.
- be able to judge the validity of the models that are presented
in the course.
Contents
The course shows how intermolecular interaction gives rise to
structure on a microscopic and mesoscopic level and how it gives a
qualitative explanation of and an ability to predict macroscopic
properties. This presents a molecular explanation to much of
phenomenological thermodynamics and macroscopic transport
processes. It also gives the tools needed to predict how
manipulations on the molecular level affect the microscopic
properties of a (bio)material. The course consists of classical
electrostatics and intermolecular interactions, and statistical
thermodynamics with applications to adsorption, liquids and
solutions of electrolytes.
The properties of bioplolymers, such as proteins and
DNA-molecules, are treated specifically.
Two full lectures are used to cover the properties of liquid water
and its unique importance for the solvation of and the interactions
between both large and small (bio) molecules.
The course also treats molecular motion in liquids (diffusion)
and thereby presents the molecular basis for macroscopic transport
processes and reaction kinetics of enzymes.
Examination details
Grading scale: TH
Assessment: The final grade is based on a written exam in the end of the course. Laboratory practicals must also be completed.
Admission
Required prior knowledge: FMAA01 Calculus in One Variable, FMA420 Linear Algebra, KFKA05 Molecular Driving Forces 1: Thermodynamics
The number of participants is limited to: No
The course overlaps following course/s: KFK080, KFK090
Reading list
- Dill, K and Bromberg, S: Molecular driving forces. Statistical thermodynamics in Chemistry, Physics, Biology and Nanoscience. 2nd edition. Garland Publishing Inc 2010. ISBN: 9780815344308..
Contact and other information
Course coordinator: Kristofer Modig, kristofer.modig@bpc.lu.se
Course homepage: http://www.cmps.lu.se/bpc/teaching/