Abstract :
PDB Goodies (version 1.0) is a web based Graphical User Interface (GUI) to manipulate the Protein Data Bank (PDB) file containing the three dimensional atomic coordinates of protein structures. Also the program allows the users to save the modified three-dimensional atomic coordinate file in their local (client) system. These manipulated fragments are being used at various stages of structure elucidation and analysis (for example, as search models for molecular replacement calculations). This software is fully incorporated with all the three dimensional protein structures available in the Protein Data Bank. At present the Protein Data Bank is maintained by the Research Collaboratory in Structural Bioinformatics (RCSB). Also this program works for the PDB file uploaded from the client machine. The program is written using CGI/PERL scripts and it is platform independent.
Input :
The package receives input as either PDB-id code for the structures available in the protein databank or three-dimensional atomic coordinates (PDB format) from the client system. For the structures solved using NMR spectroscopy, the package manipulates any model, based on users choice.
Reference : ACTA. CRYST.(2002), D58, 1385-1386