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PyMOL - Further education in three-dimensional visualization of proteins

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Funding options and tips

Who is the training aimed at

Would you like to visualize molecular structures reliably and according to the latest state of the art and science? Then this course is just right for you!

Our PyMol training course is aimed at specialists and managers, researchers and teachers who work with biological macromolecules – in laboratories, biotech companies, research facilities or medical institutions in the fields of

Structural biology, molecular biology, biochemistry
Bioinformatics
Pharmaceutical research & drug development
Medical research & translational medicine
Chemical and biotechnological industry

Advanced students and doctoral candidates also benefit from in-depth knowledge transfer and practical exercises.

Your qualification

Technical requirements

As you will be working interactively on specific case studies and producing your own 3D representations, you should ensure that you have these technical requirements:

Stable internet connection
Laptop or PC with Windows or macOS
Mouse with two buttons and mouse wheel (touchpads are unsuitable)
Technical requirements

Professional requirements

You should have a basic knowledge of biochemistry or molecular biology, in particular the following topics

Structure and composition of amino acids
Secondary, tertiary and quaternary structure of proteins
Functions of proteins in a biological context
Familiarity with protein databases such as RCSB-PDB, PDBe or AlphaFold DB

Additional requirements for Module 2 (Professional)

For the advanced module, you should already be familiar with the basic functions of PyMOL, e.g.

Creating and editing selections
Activating/deactivating representations
Coloring and camera settings
Saving images and films

Are you unsure whether your previous knowledge is sufficient?

Feel free to contact us. We will advise you individually so that you can decide which module to start with. We can also find suitable solutions for career changers with relevant practical experience.

Your motivation

Do you want to not only understand scientific content, but make it visible? Would you like to communicate your research, your product or your teaching more clearly – and use the latest tools and methods to do so? Then this course is your chance to close the gap between data and knowledge.

As a practitioner, you will acquire skills in molecular visualization and analysis that you can integrate directly into your work processes – e.g. in structure elucidation, drug design or in the documentation of scientific results. This not only strengthens your personal expertise, but also makes an important contribution to the innovative strength and competitiveness of your company.

As a scientist, you will gain new insights into the three-dimensional structure of biological macromolecules – for example in the analysis of protein-ligand interactions or in mutation studies. Our course provides you with up-to-date methodological knowledge and application skills for your research – ideal for taking your projects and publications to a new level.

As a student or doctoral candidate, you will increase your attractiveness on the job market by acquiring specific know-how in PyMOL – a key qualification in life sciences, medicine and bioinformatics. Through practical exercises and individual support, we prepare you optimally for challenging tasks in research, industry and teaching.

The need for visually and analytically trained

Topics and procedure

The offer consists of two modules, which can be booked individually or in combination:

Module 1 (Basics) is designed as a self-study module with accompanying live online consultations. It introduces you step by step to working with PyMOL: from initial visualizations and targeted selections to the development of your own representations.
Module 2 (Professional) is a live online course and deepens your knowledge of mutation studies, structural biology analyses and complex applications – ideal for those who already have PyMOL experience.

What do you learn?

Our PyMOL course enables you to professionally visualize and analyse 3D structures of biological macromolecules such as proteins, DNA or ligands. You will learn how to use molecular data in a targeted manner – for structural analysis, mutation analysis or to visualize drug binding. This will provide you with the basis for well-founded decisions in research, teaching or industrial development.

Module 1: PyMOL Basics – Introduction to molecular visualization

Self-study course with live Q&A sessions

In this basic module, you will work on the content flexibly on our Moodle learning platform. You will also have the opportunity to ask your questions in live Q&A sessions, discuss application ideas (e.g. for video creation) and exchange ideas with the course instructor and other participants.

Topic 1 - Getting started with PyMOL

Basics of 3D visualization
First selections and simple measurement functions

Topic 2 - Select & animate

Deepening the selection methods (e.g. atoms or amino acids near ligands)
Introduction to movie creation using simple examples

Topic 3 - Automating & overlaying

Introduction to PyMOL scripting (e.g. measurements via script)
Superpositions with drug examples in the active center

Topic 4 - Linking content

Creating more complex selections, scripts and animated presentations

Topic 5 - Visualizing & presenting

Creation of an approx. 5-minute movie (900 frames)
Presentation and collegial reflection of the results in the group

Module 2: PyMOL Professional – Mutation analysis and structure interpretation

Live online course with interactive practical examples

This advanced module is aimed at participants with solid prior knowledge of PyMOL. In live online sessions, you will work together with other participants on real case studies and apply your knowledge directly to specific questions from research or industry. The course leader will support you individually in transferring your knowledge to your professional practice.

Topic 1 - Understanding molecular interactions

Analysis and visualization of intramolecular interactions

Topic 2 - Mutations in a structural context

Effects of amino acid substitutions on molecular interactions and protein structure

Topic 3 - Mutation studies in practice

Case studies from research and development – e.g. drug binding, disease mechanisms, stability changes

What do you achieve?

By participating in our PyMOL course, you will secure and expand your professional qualifications in the field of molecular visualization and analysis – a key competence in modern bioscientific research and development. You will increase your opportunities to work in interdisciplinary teams by gaining a clear competitive edge in the analysis of complex protein structures, drug discovery or scientific communication.
The exchange with specialist colleagues on specific practical examples also promotes the expansion of your professional network. In this way, you create the basis for new career prospects – in research, industry or teaching.

What funding opportunities are available?

Alternative funding options for further training and coaching can be found here.

Tipps

This course is taught exclusively in English. We will be happy to advise you on your participation options.

With our English language coaching for scientists, laboratory technicians and medical employees, you can optimally prepare for the language requirements of your further training.
Find out what our clients say about us: check out the reviews.
Are you or have you been a customer of CQ and satisfied with our services? Recommend us to others and secure a reward voucher worth €100! Feel free to speak to our course instructors.

Next course dates Modul 1

01.10.2025 - 22.01.2026

New dates will follow

Next course dates Modul 2

23.01.2026 - 30.01.2026

New dates will follow

Price and range of service

Modul 1: 150,00 €, VAT exempt
E-learning with Live-Q&A-Sessions:
11.11., 18.11. and 25.11.2025
16:00-17:30 in each case

Modul 2: 1.990,00 €, VAT exempt
6 live online course days with a total of 48 teaching units of 45 minutes each

Course language: English

Contact person

Nassim El Masri

bioinformatik@cq-bildung.de
Tel. +49 30 421539 – 07

Antje Sonntag

bioinformatik@cq-bildung.de
Tel. +49 30 421539 – 11

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Price: PyMOL - Visualization of proteins Basics Module 1 - 150,00 €

Menge PyMOL – Visualisierung von Proteinen Basics

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Price: PyMOL - Visualization of Proteins Professional Module 2 48 UE - 1.990,00 €

Menge PyMOL – Visualisierung von Proteinen Professional

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