551-1556-00L  Structure Determination by Cryo-EM: Data Processing and Analysis

SemesterSpring Semester 2022
LecturersK. Locher
Periodicityyearly recurring course
CourseDoes not take place this semester.
Language of instructionEnglish
CommentNumber of participants limited to15

The block course will only take place with a minimum of 4 participants.

The enrolment is done by the D-BIOL study administration.


551-1556-00 PStructure Determination by Cryo-EM: Data Processing and Analysis
Does not take place this semester.
Permission from lecturers required for all students.
Block course in the 3rd quarter of the autumn semester
100s hrsK. Locher

Catalogue data

AbstractThis course will introduce the students to high-resolution structure determination using single particle cryo-electron microscopy, one of the key techniques for determining structures of biological macromolecules
ObjectiveThe goal of this course is to provide the students with the opportunity to pursue the processing of cryo-EM data and to gain experience in the building and refinement of an atomic model of a protein.
ContentThe students will receive a demonstration of sample vitrification and sample imaging using a cryo-electron microscope. The students will then use a pre-recorded data set to perform the calculations involved in determining the 3D structure of a model protein. Students will learn how to build an atomic model into their electron density maps, how to refine and analyze this model, and how to present their structural data. The following software packages will be used: Relion, Coot, Phenix, Pymol, Chimera.
Prerequisites / NoticeThe students will spend the majority of the time on data processing and are therefore expected to have some basic knowledge of bash terminal (Linux) commands. Basic physics, optics and linear algebra knowledge is also helpful. By the end of the course, the students will be expected to understand concepts such as the difference between Fourier and real space, image formation, the contrast transfer function (CTF), the fast Fourier transform (FFT), and Fourier shell correlation (FSC). During the course the students will be expected to complete homework assignments. At the end of the course, the students will give an oral presentation on what they learned. After the course, the students will submit a written report prepared individually.

Performance assessment

Performance assessment information (valid until the course unit is held again)
Performance assessment as a semester course
ECTS credits6 credits
ExaminersK. Locher, R. Irobalieva, J. Kowal
Typegraded semester performance
Language of examinationEnglish
RepetitionRepetition only possible after re-enrolling for the course unit.
Additional information on mode of examinationStudents are obliged to be present throughout the block course.
Cancellation: If you have to deregister from a course that has been assigned to you (just emergency reasons), please notify in written the course coordinator at least four weeks before the course starts, for courses in the 1st quarter, a cancellation period of one week applies. The study secretariat D-BIOL must also be informed (email CC to Link) so that the enrollment is deleted. Otherwise the course is considered as "failed".

Learning materials

No public learning materials available.
Only public learning materials are listed.


No information on groups available.


GeneralPermission from lecturers required for all students

Offered in

Biology BachelorBlock Courses in 3rd Quarter of the SemesterWInformation
MAS in Medical PhysicsCore CoursesWInformation