Educators:
Antje Chang, Ida Schomburg, Stefan Bietz, Sandra Placzek, Lisa Jeske (BioData)
Date:
11.10.2017 (09.00-17.00)
12.10.2017 (09.00-13.00)
Location:
TU Braunschweig, BRICS
Rebenring 56, Room 44
Content:
Introduction to BRENDA:
- History, scope and contents
- Data sources and updates
- Application areas
BRENDA web interface:
- Query engine – data access
• Text-based queries, numerical queries
• Genome explorer, EC explorer, Taxonomy tree explorer, Ontologies
• Ligand query via chemical structure or substructure – molecule editor
• Membrane proteins
• Pathway based queries
• Complex combination queries
- Result pages:
• Enzyme summary page and Ligand summary page
• Word maps
• Pathway maps
• Enzyme/disease relation
• Expected taxonomic range
• Protein 3D structure – amino acid sites
• Enzyme functional parameters – statistical analysis
• Text-mining results
Computer-based BRENDA access:
- SOAP
- SBML output
Introduction to ProteinsPlus:
- Experimental protein structures
- Protein-ligand interactions
- Basics and challenges of molecular modelling
ProteinsPlus server:
- Application area and computational methods behind ProteinsPlus
- Workflow and the interactive visualization concept
- Download options
ProteinsPlus applications:
- Protein-ligand binding site and hydrogen prediction
- Druggability and structure quality assessment
- Protein-ligand interaction analysis and 2D visualization
- Protein conformation analysis
- Protein-protein interface classification
Learning goals:
- Introduction to the BRENDA enzyme database and exploiting the potential
of enzyme structures in ProteinsPlus
- Learning and understanding the scope and organization of the databases
- Learning and working with the tools of the database
Prerequisites:
- Basic knowledge in biochemistry, molecular biology and microbiology
- we recommend that you bring your own laptop
Tools:
BRENDA, ProteinsPlus
Keywords:
BRENDA, ProteinsPlus
Contact, information and registration:
The training is free of charge. The participants have to cover their traveling
and hotel expenses. A list of hotels will be supplied.
Registration Deadline: 01.10.2017