WHAT IS PROTEIN DATA BANK?
The Protein Data Bank (PDB) archive is the single worldwide repository of information about the 3D structures of large biological molecules, including proteins and nucleic acids. These are the molecules of life that are found in all organisms including bacteria, yeast, plants, flies, other animals, and humans. Understanding the shape of a molecule helps to understand how it works. This knowledge can be used to help deduce a structure's role in human health and disease, and in drug development. The structures in the archive range from tiny proteins and bits of DNA to complex molecular machines like the ribosome. The PDB archive is available at no cost to users. The PDB archive is updated each week at the target time of Wednesday 00:00 UTC (Coordinated Universal Time). The most recent release is timestamped and linked on every page in the top right header.
The PDB was established in 1971 at Brookhaven National Laboratory and originally contained 7 structures. In 1998, the Research Collaboratory for Structural Bioinformatics (RCSB) became responsible for the management of the PDB. In 2003, the wwPDBwas formed to maintain a single PDB archive of macromolecular structural data that is freely and publicly available to the global community. It consists of organizations that act as deposition, data processing and distribution centers for PDB data.In addition, the RCSB PDB supports a website where visitors can perform simple and complex queries on the data, analyze, and visualize the results. There software that I used to explain the structure of molecules is Rasmol which is a computer program written for molecular graphics visualization intended and used primarily for the depiction and exploration of biological macromolecule structures. It was originally developed by Roger Sayle in the early 90s.Among the functions of this software are:
1) You can make publication-quality molecular graphics without tears, including rotating
images for Powerpoint slides using Polyview-3D.
2) Any molecule can be explored easily. Get detailed views of noncovalent interactions in a few
clicks, with FirstGlance in Jmol.
3) Molecules can be colored by evolutionary conservation automatically with the ConSurf
Server.
4) Everything works from menus, buttons, and forms. (You won't need to learn any "script
command language".)
5) Help is displayed automatically, with color keys, tooltips, etc.
6) There is nothing to install (except maybe java) and everything works on Windows, Mac OS X,
and linux.
The structure molecule that I want to explain is Crystal structure of Bacillus subtilis Lon N-terminal domain.This is information about this molecule:
But this is a few details about this structure:
| Release Date of Structure | 2010-6-30 |
| Compound Structure | Polypeptide,Length of Structure:209,Chains:A,B |
| Classification Structure | Hydrolase |
| Experiment | X-RAY DIFFRACTION with resolution 2.6 A |
| Citation | Crystal Structures of Bacillus subtilis Lon Protease |
| Citation's Author | Dumen,R.E. and Lowe,J. |
