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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 Protein Data Bank (PDB) file format is a textual file format describing the three-dimensional structures of molecules held in the Protein Data Bank, now succeeded by the mmCIF format. The PDB format accordingly provides for description and annotation of protein and nucleic acid structures including atomic coordinates, secondary structure ...
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 original version of the database was developed around 1995 by Roman Laskowski and collaborators at University College London. [5] As of 2014, PDBsum is maintained by Laskowski and collaborators in the laboratory of Janet Thornton at the European Bioinformatics Institute (EBI).
Protein Data Bank in Europe – Knowledge Base (PDBe-KB) [1] is a community-driven, open-access, integrated resource whose mission is to place macromolecular structure data in their biological context and to make them accessible to the scientific community in order to support fundamental and translational research and education.
The relative free energy of each ground state and transition state has been determined experimentally, and is displayed in the figure. [ 2 ] The structure of TPI facilitates the conversion between dihydroxyacetone phosphate (DHAP) and glyceraldehyde 3-phosphate (GAP).