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The Protein Data Bank ( PDB) [1] is a database for the three-dimensional structural data of large biological molecules such as proteins and nucleic acids, which is overseen by the Worldwide Protein Data Bank (wwPDB). These structural data are obtained and deposited by biologists and biochemists worldwide through the use of experimental ...
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 ...
Protein structure database. In biology, a protein structure database is a database that is modeled around the various experimentally determined protein structures. The aim of most protein structure databases is to organize and annotate the protein structures, providing the biological community access to the experimental data in a useful way.
Program database ( PDB) is a file format (developed by Microsoft) for storing debugging information about a program (or, commonly, program modules such as a DLL or EXE ). PDB files commonly have a .pdb extension. A PDB file is typically created from source files during compilation. It stores a list of all symbols in a module with their ...
The Worldwide Protein Data Bank, wwPDB, is an organization that maintains the archive of macromolecular structure. Its mission is to maintain a single Protein Data Bank Archive of macromolecular structural data that is freely and publicly available to the global community. [1] [2] The organization has five members: [3] Research Collaboratory ...
PDBbind database. The PDBbind database is a comprehensive collection of experimentally measured binding affinity data (Kd, Ki, and IC50) for the protein-ligand complexes deposited in the Protein Data Bank (PDB). [1] [2] It thus provides a link between energetic and structural information of protein-ligand complexes, which is of great value to ...
The wwPDB maintains the specifications of the PDB file format and its XML alternative, PDBML. There was a fairly major change in PDB format specification (to version 3.0) in August 2007, and a remediation of many file problems in the existing database. The typical file extension for a PDB file is .pdb, although some older files use .ent or .brk ...
Overview of the structures contained within the Protein Data Bank. PDBsum is a database that provides an overview of the contents of each 3D macromolecular structure deposited in the Protein Data Bank (PDB). [1] [2] [3] [4]