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The new director was Helen M. Berman of Rutgers University (one of the managing institutions of the RCSB, the other being the San Diego Supercomputer Center at UC San Diego). [13] In 2003, with the formation of the wwPDB, the PDB became an international organization. The founding members are PDBe (Europe), [3] RCSB (US), and PDBj (Japan). [4]
Research Collaboratory for Structural Bioinformatics Protein Database (RCSB PDB) Protein Data Bank in Europe (PDBe) Protein Data Bank Japan (PDBj) Biological Magnetic Resonance Data Bank (BMRB) Electron Microscopy Data Bank (EMDB). The wwPDB was founded in 2003 by RCSB PDB (USA), PDBe (Europe) and PDBj (Japan). In 2006 BMRB (USA) joined the wwPDB.
Protein DataBank in Europe (PDBe), [18] ProteinDatabank in Japan (PDBj), [19] Research Collaboratory for Structural Bioinformatics (RCSB) [20] (PDB) Protein structure databases Structural Classification of Proteins (SCOP) Protein structure databases CATH database: Protein structure databases ModBase: Sali Lab, UCSF: database of comparative ...
Helen Miriam Berman is a Board of Governors Professor of Chemistry and Chemical Biology at Rutgers University and a former director of the RCSB Protein Data Bank (one of the member organizations of the Worldwide Protein Data Bank). A structural biologist, her work includes structural analysis of protein-nucleic acid complexes, and the role of ...
The data are typically obtained by X-ray crystallography or nuclear magnetic resonance spectroscopy (NMR spectroscopy), and submitted manually by structural biologists worldwide through PDB member organizations – PDBe, RCSB, PDBj and BMRB. The database can be accessed through the webpages of its members, including PDBe (housed at the EMBL-EBI).
EM Data Bank also provides the EMsearch search tool and data can also be queried at RCSB, EMBL-EBI and PDBj. EMDB is an archive for three-dimensional density maps of all types of biological assemblies, including ribosomes, chaperones, polymerases, multifunctional enzymes and viruses.
BioJava is an open-source software project dedicated to provide Java tools to process biological data. [1] [2] [3] BioJava is a set of library functions written in the programming language Java for manipulating sequences, protein structures, file parsers, Common Object Request Broker Architecture (CORBA) interoperability, Distributed Annotation System (DAS), access to AceDB, dynamic ...
MDL Chime was a free plugin used by web browsers to display the three-dimensional structures of molecules. [2] and was based on the RasMol code. [3] ... RCSB Protein ...