Bourne Laboratory Databases

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Last Update March 2009

Biological Structure

 

  • The RCSB Protein Data Bank (PDB)

The single worldwide source of primary structural data on biological macromolecules determined experimentally. Developed in collaboration with Rutgers University our partner in the Research Collaboratory for Structural Bioinformatics (RCSB).

  • Functional Site Classification (SMAP)

Software and associated documentation for finding comparable ligand binding sites.

The main goal of this resource is to better understand principles behind structural domains identified from 3D coordinates ref .

  • Structure Comparison Database (CE)

Pair-wise structure comparisons based on the Combinatorial Extension (CE).

Compilation of recurring protein substructures.

Use of structure comparison to extend the coverage of GO terms in the PDB.

Automated classification of protein-DNA complexes of known structure.

  • Multiple Structure Alignment CE-MC

          

Starting from CE pair wise alignments a multi-structure alignment is computed using a Monte Carlo optimization technique.

 

Graphical comparison of contact maps.

Signal Transduction

 

Hand curated protein kinase-like superfamily structure alignments

Apoptosis

 

Known domains involved in apoptosis and associated sequence alignments.

Immunology

 

  • Immune Epitope Database (IEDB)

Information that facilitates the dissemination of immune epitope information, the generation of new research tools, diagnostic techniques, vaccines and therapeutics for emerging and re-emerging diseases.