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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 ...
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
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).
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
"OrgSyn search". PDB PDBe Protein Data Bank in Europe EMBL-EBI: has some chemicals as well as proteins "PDBe". PATENTSCOPE: WIPO "PATENTSCOPE". 16,000,000 PDB RSCB Protein Data Bank "PDB". 166,891 PharmGKB Shriram Center for Bioengineering and Chemical Engineering drugs targets prescribing info curated "PharmGKB". PHAROS Illuminating the ...
UniProt is a freely accessible database of protein sequence and functional information, many entries being derived from genome sequencing projects.It contains a large amount of information about the biological function of proteins derived from the research literature.
Historically, it was an important tool for molecular biologists since the extremely optimized program allowed the software to run on (then) modestly powerful personal computers. Before RasMol, visualization software ran on graphics workstations that, due to their cost, were less accessible to scholars.
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