FASTA amino acid sequence input->contests
|Opened by:||Gray Thomas|
|Opened on:||Monday, December 13, 2010 - 17:44|
|Last modified:||Friday, February 24, 2012 - 22:55|
For a class project recently I was asked to annotate a hypothetical protein in the Pedobacter heparinus genome. It seemed like the protein was related to beta barrel TonB receptive proteins, but I had no way of telling if the protein actually made a beta barrel or not. Remembering the foldit demonstration in the beginning of the semester I thought, "wouldn't it be great if I could put my amino acid sequence into foldit, and then have a competition to see who could find the lowest energy solution?"
I imagine that the implementation might begin with an enormous, long line of peptides, as they might spew from the ribosome, and then the user would go along the line disabling the lock and wiggling until a rough estimate of the structure is in place. All the while, if they noticed a better solution they could help the computer out. Slowly the two would produce a reasonable estimate of the structure, and scientific curiosity would be fulfilled.
I'm very fond of your program, it was the one shining beacon of hope for a robotics major in a required molecular biology class.