Understanding Protein Structures
This course will provide instruction and hands-on training in protein structures using several public databases and bioinformatics tools freely available on the internet.
Topics include: searching structures in the PDB and their schematic display in PDBSum; exploring the structural classification of proteins in the CATH and SCOP databases; examining the 3-D orientation of catalytic residues using Catalytic Site Atlas; linking functional annotation to structures using ProFunc and InterPro; and investigating domain-domain interactions using iPFAM.
| Time | Topic | Trainer/Speaker |
|---|---|---|
| Day 1 | ||
| 09.00 - 09.15 | Welcome and Orientation | Vicky Schneider |
| 09.15 - 09.30 | Introduction | Jennifer McDowall |
| Finding your structure | ||
| 09.30 - 10.30 | Macromolecular Structural Database | Sanchayita Sen |
| 10.30 - 10.45 | Coffee break | |
| 10.45 - 12.30 | Hands on PDBe | Sanchayita Sen |
| 12.30 - 13.30 | Lunch | |
| Annotating your structure | ||
| 13.30 - 14.00 | Lecture on: PDBSum | Roman Laskowski |
| 14.00 - 15.45 | ProFunc Lecture & Hands On | James Watson |
| 15.45 - 16.00 | Tea break | |
| 16.00 - 17.00 | Lecture on CATH | Christine Orengo |
| Day 2 | ||
| Classifying your structure | ||
| 09.00 - 10.00 | Lecture on CSA | Nicolas Furnham |
| 10.00 - 10.30 | Hands on CSA | Nicolas Furnham |
| 10.30 - 10.45 | Coffee break | |
| 10.45 - 11.45 | iPFAM lecture & Hand on | Rob Finn |
| 11.45 - 12.45 | Lecture on SCOP | Alexey Murzin |
| 12.45 - 13.45 | Lunch | |
| Exploring your structure | ||
| 13.45 - 14.30 | Lecture on: InterPro | Jenifer McDowall |
| 14.30 - 15.30 | Hands on InterPro | Jennifer McDowall |
| 15.30 - 15.45 | Tea break | |
| 15.45 - 16.30 | Hands on InterPro continues | Jennifer McDowall |
| 16.30 - 17.10 | Synopsis | ALL |
A basic understanding of protein structures and a familiarity with the use of biological databases would be an advantage.
The training is free, however we need to charge participants an administration fee of £25 per day.
Registration Closed.
Course materials can be accessed from the following link:
/training/sites/ebi.ac.uk.training/files/materials/2008/course_080506_protein_structure.zip