OSS-HMM (Optimal Secondary Structure prediction Hidden Markov Model) is a software for secondary structure predictions (3 states, alpha helix, H, beta strand, b and coils, C) that is based on a hidden Markov model formalism. When it is used with a single sequence it provides a Q3 of 68.8%. When it is used with a multiple sequence alignment it provides a Q3 of 75.5%. This tool can also be used for generating protein sequences having a given secondary structure pattern
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J Martin, J-F Gibrat and F Rodolphe, (2006).
Analysis of an optimal hidden Markov model for secondary structure prediction.
BMC Structural Biology, 6:25 (20p.).