Another new thing that I learnt in my Computers in Science lecture today..PDB...it sounds nearly like PBB.huhu..well,actually PDB stands for Protein Data Bank.
And then, what is Protein Data Bank itself?
>It is like a storage area where 3-D structural data of large biological molecules.All I can think of after reading this statement is protein.But data of other large molecules like nucleic acids also is stored here.There are several methods of obtaining the data:
- X-ray crystallography
- NMR spectroscopy
- Electron microscopy
Of course for each storage area there will be a supervisor and the one that oversee PDB is the Worldwide Protein Data Bank(wwPDB).
Currently, there are all together 3 file formats that can be used to download the structure files. They are PDB file format, "macromolecular Crystallographic Information file" format(mmCIF) and also PDBML format.
This is a link to go to the homepage of RCSB PDB (Resource for Studying Biological Macromolecules):
http://www.pdb.org/pdb/home/home.do
This one is to go to the search page of RCSB PDB where you can search for the structures of your desired molecules: http://www.pdb.org/pdb/static.do?p=search/index.html
And this one is to link you to Worldwide PDB website: http://www.wwpdb.org/
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Display: Wireframe |
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Display: Ball & Stick |
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Display: Strands
Colours: Structures |
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Display: Ribbons
Colours: Structures
At different angle of view |
Above are different views of the structure of
Bacillus subtilis Lon N-terminal domain (Scientific name:
Bacillus subtilis).
Lon ATP-dependent proteases act as the protein quality control systems of bacterial cells and eukaryotic organelles. In just a polypeptide chain, eubacterial Lon proteases contain an N-terminal domain, an ATPase domain, and a protease domain.
The above molecules are actually one similar molecule viewed in different ways and angles.The molecule is ATP-dependent protease La 1 which is classified as hydrolase with structure weight of 48027.40. It only has 1 polymer that is polypeptide (L).
