Protein Data Bank

The Protein Data Bank (PDB) is a repository for the 3-D structural data of large biological molecules, such as proteins and nucleic acids. The data, typically obtained by X-ray crystallography or NMR spectroscopy and submitted by biologists and biochemists from around the world, are freely accessible on the internet. The PDB is overseen by an organization called the Worldwide Protein Data Bank, wwPDB.

The PDB is a key resource in areas of structural biology, such as structural genomics. Most major scientific journals, and some funding agencies, such as the NIH in the USA, now require scientists to submit their structure data to the PDB. If the contents of the PDB are thought of as primary data, then there are hundreds of derived (i.e., secondary) databases that categorize the data differently. For example, both SCOP and CATH categorize structures according to type of structure and assumed evolutionary relations; GO categorize structures based on genes.

3D Modeling	Compund	Summary
FtsH peptidase	Gene Ontology Molecular function protein binding (GO:0005515) GTP binding (GO:0005525) Biological process SRP-dependent cotranslational protein targeting to membrane (GO:0006614)  EC#:3.6.5.4	Authors:   Estrozi, L.F.,   Boehringer, D.,   Shan, S.-O.,   Ban, N.,   Schaffitzel, C. Method:   ELECTRON MICROSCOPY Chains:A
THERMOLYSIN	Gene Ontology Molecular function metalloendopeptidase activity (GO:0004222) EC#:3.4.24.27	Authors:   Juers, D.H.,   Weik, M. Method:   X-RAY DIFFRACTION Chains:E
Leucyl Aminopeptidase	Gene Ontology Cellular component intracellular (GO:0005622) Molecular function aminopeptidase activity (GO:0004177) Biological process proteolysis (GO:0006508) EC#:3.4.11.1	Authors:   Kale, A.,   Dijkstra, B.W.,   Sonke, T.,   Thunnissen, A.M.W.H Method:   X-RAY DIFFRACTION Chains:A, B, C, D, E, F

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