Venue
Remote course
June 22th to June 24th (2022) (3 days):
*3 Mornings: Presentations and training.
*2 Afternoons: Personal work.
Aim of the course:
Hands-On Training Course that introduces the fundamentals and main tools needed to build an atomic model in the context of cryo-EM, starting from a 3D map and the aminoacid sequence of each protein chain. The tools will be used inside the Scipion framework (de la Rosa-Trevin et al. 2016) and examples will focus on the modeling by homology scenario, including AlphaFold2 prediction models.
Expected impact for young researchers
Atomic models based on high-resolution density maps are the ultimate result of the cryo-EM structure determination process. In this course, we introduce the basic tools needed to perform this task. Ph.D. students, as well as post-docs, will undoubtedly benefit from approaching this technique since atomic models guide our mechanistic interpretation of cryo-EM structures.
Contacts
Lead contact:
Carlos Oscar Sorzano
email. coss@cnb.csic.es
Administrative Contact:
Blanca Benitez
email: blanca@cnb.csic.es
Tutors
Marta Martínez (MM), Roberto Marabini (RM)
Schedule and contents:
*June 22th:
- 9:30: Welcome and presentation of the course, dynamics and mentors.
- 10:00: Introduction to model building in the context of cryo-EM and Scipion
- 10:30: Introduction to Scipion (import data)and AWS
- 11:30: Map preprocessing
- 12:00: Break
- 12:15: Introduction to AlphaFold2 (Searching for prediction models)
- 13:00: Searching models by homology
- 13:30: Afternoon task proposal
*June 23th:
- 9:30: Review of contents and follow up of the afternoon task proposal.
- 10:00: Kahoot
- 10:15: Rigid fitting of initial models
- 11:00: Flexible fitting
- 12:00: Break
- 12:15: Flexible fitting (continuation)
- 14:00: Afternoon task proposal
*June 24th:
- 9:30: Review of contents and follow up of the afternoon task proposal.
- 9:45: Presentation of the course questionnaire
- 10:00: Kahoot
- 10:15: Assessment and validation of models
- 11: 00: Building the model of the protein complex
- 11:15: Break
- 11:30: Structure analysis: Chain contacts
- 12:00: Structure analysis: Structure comparison
- 12:30: Submission of structures
- 13:00: Summary
- 13:30: INSTRUCT short message and farewell
REGISTRATIONRegistration Fee: 50€
Registration online closed.
This course is organized by I2PC in collaboration with Instruct – ERIC, an Integrated Structural Biology Infrastructure for Europe and CRIOMECORR Project
