Bringing Structure to Biology - Protein Structures and Tools from the EBI - Cambridge University, UK
An understanding protein structure is vital for the elucidation of its function. Information gleaned from the three dimensional structures of proteins is used to understand the biochemical and functional roles of such molecules in life and for the design and discovery of drug molecules for a variety of diseases and illnesses such as cancer, influenza and tuberculosis.
The Protein Data Bank (PDB) is the central publicly accessible repository of all experimentally derived macromolecular structures. Containing over 80,000 structures of proteins and nucleic acids the PDB is an essential scientific resource.
The PDB is managed by a consortium of international organizations collectively known as the worldwide Protein Data Bank (wwPDB). The Protein Data Bank in Europe (PDBe) is one of the founding members of the wwPDB along with the RCSB Protein Data Bank in the USA and Protein Data Bank Japan(PDBj) in Japan.
In addition to serving as a deposition site for data deposited to the PDB, the PDBe also provides services for the search and analysis of the collective wealth of data contained within the PDB.
This session will usually be offered as one of a number of short introductions to EBI Services that can be booked separately.
- Protein DataBase Europe
- World Wide Protein Data Bank
- RCSB Protein Data Bank
- Protein Data Bank Japan
- PDBe Tutorial
- Our courses are open to all who might benefit
- Booking priority is given to people from Cambridge University and Collaborating Institutes
- Individual Course fees are required only from External participants not from Collaborating Institutes
- Basic computing skills
- Graduate level in Life Sciences
- To provide a practical introduction to the PDB database as provided by the EBI
|Day 1 - 6 February 2013|
|9:30 - 10:15||* Introduction - An overview of the PDBe and its role in the wwPDB. Brief introduction to the PDBe web pages
* Quips and mini-tutorials - Worked examples of how to examine structures.
|Dr Gary Battle , Matthew Conroy|
|10:15 - 10:45||What can we learn from structures? - Examples from the PDB archive.||Dr Gary Battle , Matthew Conroy|
|10:45- 11:30||Tea/Coffee - round-table discussion of common searches, user requirements|
|11:30 - 12:30||Browsing and anatomy of a PDB Summary page - Talk and mini-tutorials.||Dr Gary Battle , Matthew Conroy|
|12:30 - 13:30||Lunch|
|13:30 - 14:30||PDBePISA - Analysis of quaternary structures, interfaces and protein-protein interactions. Talk and mini-tutorial.||Dr Gary Battle , Matthew Conroy|
|14:30 - 15:30||PDBeFold - Finding proteins with similar 3D structure - structural alignment and analysis tool. Talk and mini-tutorial.||Dr Gary Battle , Matthew Conroy|
|15:30 - 15:45||Tea/Coffee|
|15:45 - 16:30||Chemistry in the PDB, - Browsing compounds, fragment searches, binding sites analysis||Dr Gary Battle , Matthew Conroy|
|16:30 - 17:00||Open session Q&A - Concluding opportunity for questions, feedback etc||Dr Gary Battle , Matthew Conroy|
Full details regarding this event can be found here: http://www.training.cam.ac.uk/gsls/event/553092