A brief introduction to DPM
DPM (Double Prediction Method) is a secondary structure prediction which predicts the protein structural class and then the secondary structure for the sequence (this is why Double). The DPM method consists in 4 successive steps:

• Prediction of the structural class of a protein from AA composition (Nakashima et al. 1986 J. Biochem. Tokyo, 99, 153-162).
• Preliminary secondary structure estimation from a simple algorithm.
• Comparison between the 2 independent predictions.
• Optimization of parameters and reprediction of secondary structure.

Availability in NPS@
This method is available :

• At URL : https://npsa-prabi.ibcp.fr/NPSA/npsa_dpm.html.
• In secondary consensus prediction at URL : https://npsa-prabi.ibcp.fr/NPSA/npsa_seccons.html.
• In protein sequences multiple alignement at URLs :
  • CLUSTALW : https://npsa-prabi.ibcp.fr/NPSA/npsa_clustalw.html
  • MULTALIN : https://npsa-prabi.ibcp.fr/NPSA/npsa_multalin.html
• when you work with a sequence in NPS@ if you make a consensus secondary prediction on it.

Parameters
No parameter required.

NPS@ DPM output example
You can see:

• MPSA/ANTHEPROT link to view the prediction in these local protein sequence analysis softwares.
• The color coded prediction (a sequence line and below the corresponding predicted states).
• The sequence length.
• The percentage of each secondary element.
• Two graphics. The first to better visualize the prediction. In the second, there are the score curves for each predicted state.
• Links on the prediction result text file.

References