Recommended Protein Folding Software

Dr Engelbert Buxbaum engelbert_buxbaum at hotmail.com
Thu Oct 16 08:12:15 EST 2003


Mulatz wrote:

> I'm looking for software to predict protein folding.
> 
> I have the sequence of a gene and I would like to view the protein that the
> sequence codes for. I have searched the internet and I cannot find any
> software (commercial or otherwise) that can predict the structure.

Because such a thing does not realy exist (flame-prove suit doned). 

The prediction of secondary from primary structure should, in theory, be
possible because the entire folding information is contained in the
primary structure (Anfinsen theorem). However, in practice and despite
30 years of effort, ab initio prediction (without a homologous protein
with known structure from X-ray crystallography or NMR) results in about
1/3 of the amino acids being assigned wrong structures (soluble
proteins, membrane bound is worse).

If you have a homologous protein with known structure the situation is
somewhat better. But even that is sufficient only for hypothesis
forming, not checking.

In short, protein structures need to be determined in vitro, not in
silico.





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