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.


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.