Tehdyt toimenpiteet
Sybyl Training Course 2012
This years course will concentrate on modelling. We will cover modeling proteins and ligands and
modeling proteins from sequence to structure. We will also look into some new features in the soon to be released Sybyl-X 2.0.
You can see more in-depth description on the course modules on Tripos web pages:
Modeling Proteins from Sequence to Structure
The course is free for Sybyl consortium members.
Program
Day 1
9.30 Registration
10.00 Session I
12.00 - 13.00 Lunch
13.00 - 15.00 Session II
15.00 - 15.20 Coffee break
15.20 - 17.00 Session III
Subjects covered:
New features in Sybyl-X 2.0
- Introduction to Molecular Data Explorer
Modeling proteins and ligands
This course provides an introduction to the fundamentals of molecular design and analysis with an emphasis on the interactions between proteins and ligands. Participants will visualize molecules and prepare protein/ligand complexes for molecular modeling. They will modify a protein structure by mutations, insertions and deletions. Finally, they will compare proteins by aligning sequences and structures.
What You Will Learn
- Produce mutated proteins with inserted or deleted residues.
- Create pictures that convey instant information.
- Communicate the important details of protein structure.
- Rapidly identify and fix problems in protein structure.
- Produce good protein geometries.
- Make efficient use of energy minimization in proteins.
- Assess protein similarities/differences using sequence alignments.
- Align protein structures for effective visual communication.
Day 2
10.00 Session IV
12.00 - 13.00 Lunch
13.00 - 15.00 Session V
15.00 - 15.20 Coffee break
15.20 - 17.00 Session VI
Subjects covered:
Modeling proteins from sequence to structure
This course focuses on building 3D protein models from sequences and evaluating these models. Participants will search a database to find proteins that are homologous to a target sequence and use these homologous proteins as templates to construct a protein model of the target sequence. Learners will gauge the quality of the resulting protein model by examining its geometry and comparing it to other protein structures.
What You Will Learn
- Create a 3D protein structure from your sequence for use in further molecular modeling studies.
- Derive reliable models from a high-quality, expansive database of protein structures.
- Measure the level of confidence you can place in your protein model.
- Detect distant homologs of your target sequence.
- Produce superior alignments based on structure and sequence information.
- 100 euros + VAT (23%) for Finnish academics
- 500 euros + VAT (23%) for others
Registration
Additional information
Course is free for Sybyl consortium members. Every laboratory is guaranteed two seats. The rest of the seats are filled in registration order.
If extra seats are available, course is also open to non consortium members for a fee.
For further information, please contact Ari-Matti Saren, ari-matti.saren(at)csc.fi, tel. +358 50 3819128.
