If you use this service, could you please send us a mail to npsang@ibcp.fr with details about your usage of the NPSA service (tools used, frequency, type of sequence, ..) ? Could you explain what makes this service unique for you ? Could you please add information about your country and your laboratory ? Thanks

SIMPA96 help

A brief introduction to SIMPA96
SIMPA96 is a nearest neighbor secondary structure prediction method. It's based on the homologue method described by Levin et al.

Availability in NPS@
This method is available :

At URL : https://npsa-prabi.ibcp.fr/NPSA/npsa_simpa96.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@ SIMPA96 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 reliability scores for each predicted state.
The paramaters used.
Link on the prediction result text file.

References

User : public Last modification time : Mon Mar 15 15:24:37 2021. Current time : Sat Dec 14 22:45:23 2024