PubMed · 2031060
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H Schweim, K Nagel. 1991. [PlotIt--statistics and graphics in 3 dimensions].. https://doi.org/10.1002/pauz.19910200110
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PDB Goodies is a web-based graphical user interface (GUI) to manipulate the Protein Data Bank file containing the three-dimensional atomic coordinates of protein structures. The program also allows users to save the manipulated three-dimensional atomic coordinate file on their local client system. These fragments are used in various stages of structure elucidation and analysis. This software is incorporated with all the three-dimensional protein structures available in the Protein Data Bank, which presently holds approximately 18 000 structures. In addition, this program works on a three-dimensional atomic coordinate file (Protein Data Bank format) uploaded from the client machine. The program is written using CGI/PERL scripts and is platform independent. The program PDB Goodies can be accessed over the World Wide Web at http://144.16.71.11/pdbgoodies/.
SSD-4, the fourth version of the NIST Surface Structure Database, has appeared in early 2002 as a significant upgrade to both the database and graphics software; it now also includes nearly 1300 structures published through the end of 2000. SSD is an interactive PC-based database of critically selected surface structures determined with a variety of experimental techniques. The data include not only atomic coordinates, bond lengths and bond angles, but also information about experimental preparation, measurement and analysis methods. The software provides advanced search and display facilities, as well as interactive three-dimensional color visualization and analysis tools of great flexibility. In addition, the program can generate publication-quality color or grayscale prints of any structure, with a host of user-selectable options (such as view angle, perspective, colors, ball and bond styles, and labels).
The Nucleic Acid Database was established in 1991 as a resource to assemble and distribute structural information about nucleic acids. Over the years, the NDB has developed generalized software for processing, archiving, querying and distributing structural data for nucleic acid-containing structures. The architecture and capabilities of the Nucleic Acid Database, as well as some of the research enabled by this resource, are presented in this article.