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Other non-free, shareware programs include ICM-Browser, [23] MDL Chime, UCSF Chimera, Swiss-PDB Viewer, [24] StarBiochem [25] (a Java-based interactive molecular viewer with integrated search of protein databank), Sirius, and VisProt3DS [26] (a tool for Protein Visualization in 3D stereoscopic view in anaglyph and other modes), and Discovery ...
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 ...
The RCSB PDB presently acts as the "archive keeper". This ensures that there is only one version of the data which is identical for all users. The modified database is then made available to the other wwPDB members, each of whom makes the resulting structure files available through their websites to the public.
Protein Data Bank: 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
PDB Format Guide This is the current version (3.3) of the PDB format specification. PDBML A more recent, alternative XML-based file format for molecular coordinates. The RCSB Protein Data Bank; Protein Data Bank in Europe; The Molecular Modeling DataBase (MMDB) from NCBI; The wwPDB remediation Project from wwPDB
Much of this software development and marketing is carried out by CCDC Software Limited (founded in 1998), a wholly owned subsidiary which covenants all of its profits back to the CCDC. Although the CCDC is a self-administering organization, it retains close links with the University of Cambridge , and is a University Partner Institution that ...
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