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Molecule of the Day Archive

Blogged by:
Antony Williams

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The molecule of the day is: Biotin

Biotin is an essential vitamin, and cofactor in key reactions of the cell, functioning chiefly in metabolic reactions. The biotinylation reaction is also important to the lab repertoire. The biochemical reactions that depend on biotin are particularly important to the microflora on which we depend, and it is likely that they can free up some of the molecule that is chemically bound to human foodstuffs. Eat your cheese!

other names: 58-85-5 Biotin C00120 Coenzyme R D-Biotin Vitamin H

related molecule names: Biotin amide C01893 Biotinyl-CoA C01894 Biocytin C05552 N6-D-Biotinyl-L-lysine epsilon-N-Biotinyl-L-lysine Biotinyl-5'-AMP C05921

molecule directory: 3367

related molecule directories:

related molecule pdb files:

pdb file, 3367.pdb
CAS: 58-85-5
Canonical SMILES: C1C2C(C(S1)CCCCC(=O)O)NC(=O)N2

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Molecule News

updated Tue Aug 26 19:27:29 EDT 2008

Several new indices have been added to our sidebar, notably; current index by name, and gallery by name. These are large indices, but also vastly incomplete, and work is underway to improve them. A list of bloggers who have mentioned the site, with links in their blogs, is now in the front sidebar, although only one is known thus far. Due to the vastness of the scale, many of these things will be divided out and buried a little deeper eventually, but they can be showcased now, and they are a good survey.

updated Tue Aug 19 19:45:09 EDT 2008

Some facts: The Molecules website contains more than 4 million small molecule structure files in pdb format, and molecular graphics representations. About 50 million molecules are still in the pipe, and they are expected to appear here over the course of the next few weeks and months. The pdb format is readable by common FOSS molecule viewer software, such as RasMol and PyMOL. In due course, we plan to provide high quality structures via energy minimization refinement, and additional resources. is founded in the spirit of free software, open source, and public access. It is hoped that access to these files will be a wonderful community resource for science education, research, and entertainment as well. We are looking for investment, funding, or sponsorship in order to expedite and expand this work, and lead the field, with an eye towards an advanced, complete, synthetic, structural, and informatical bioorganome. Meanwhile, the site is already an exceptional lab resource, and molecular catalog, providing the means and building blocks towards additional novel structures. We aim to be the best.

The structural biology, protein crystallography, and molecular graphics talent that is building the Molecules archive is available to work for you in a contract or consulting arrangement. Wide-ranging expertise is available. is built entirely with FOSS, free and open source software, GNU-Darwin OS, and it is under the aegis of The GNU-Darwin Distribution. Here is a link to the Distribution résumé. Our founder is an X-ray laboratory admin for the Department of Biophysics and Biophysical Chemistry of Johns Hopkins University School of Medicine. You can also read his CV. We would like to build a community around this website, and we are looking for volunteers and collaborators to help. Regarding any aspect of the work of this site, please feel free to contact us,, with gdmolecules in the subject line. Cheers!