3dm: protein engineering super-family platforms bio-prodict 2012-01-25 3dm super-family systems...
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3DM: Protein engineering Super-family platforms
Bio-Prodict
2012-01-25
3DM super-family systems
Henk-Jan JoostenRemko KuipersTom v/d Bergh
Bas Vroling
3DM: Protein engineering Super-family platforms
Bio-Prodict
Founded 2008 Spinoff WUR 4 Employees New office in Nijmegen
3DM: Protein engineering Super-family platforms
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: 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
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
Mutation data (literature, Swiss-Prot, OMIM, other mutation data bases)
* For publication see: www.bio-prodict.nl
Amino acid data
All data are stored connected to the 3D numbering scheme
and thus to the alignment, to the structures and each other
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).
SNP (SNP databases, genome sequencing projects)
Functional data (glycosilation, phosphorylation, active site, etc)
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
VisibilityNew tools
3DM: Protein engineering Super-family platforms
Thank you for your attention