Transcript BIOP partner presentation

3DM: Protein engineering Super-family platforms
Bio-Prodict
3DM super-family systems
Henk-Jan Joosten
Remko Kuipers
Tom v/d Bergh
Bas Vroling
2012-01-25
3DM: Protein engineering Super-family platforms
Bio-Prodict
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Founded 2008
Spinoff WUR
4 Employees
New office in Nijmegen
3DM: Protein engineering Super-family platforms
3DM: Systematic analysis of heterogeneous super-family data to
discover protein functionalities
Connect different data types: Structures, sequences, mutations,
annotations, correlations, contacts, etc
Data visualization: Online, In structures, In articles
Enzyme Engineering: Changing specificity and activity, inhibitor design,
increasing thermostability and enantio selectivity.
DNA diagnostics: pathogenicity prediction of DNA variants
Drug design: inhibitor design, ligand binding analysis, discrimination
agonist/antagonist
3DM: Protein engineering Super-family platforms
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3D Numbers -> structure – alignment link
3DM: Protein engineering Super-family platforms
3DM: Protein engineering Super-family platforms
Amino acid data
Mutation data (literature, Swiss-Prot, OMIM, other mutation data
bases)
Data from PDB files (protein-protein interactions, ligand
contacts, bridges, solvent accessibility, flexibility/RMSD, etc)
Alignment data (correlated mutations, conservation, family
specific residues, residue abundance, etc).
Functional data (glycosilation, phosphorylation, active site, etc)
SNP (SNP databases, genome sequencing projects)
All data are stored connected to the 3D numbering scheme
and thus to the alignment, to the structures and each other
* For publication see: www.bio-prodict.nl
3DM: Protein engineering Super-family platforms
* For publication see: www.bio-prodict.nl
3DM: Protein engineering Super-family platforms
3DM: Protein engineering Super-family platforms
3DM: Protein engineering Super-family platforms
3DM: Protein engineering Super-family platforms
3DM: Protein engineering Super-family platforms
3DM: Protein engineering Super-family platforms
3DM: Protein engineering Super-family platforms
Conclusion
3DM: Protein engineering Super-family platforms
Conclusion
3DM: Protein engineering Super-family platforms
Newprot
Visibility
New tools
3DM: Protein engineering Super-family platforms
Thank you for your attention