What is NPS@ ?
Software facilities to analyse NPS@'s data:
AnTheProt and MPSA.
Work with your own database
Geno3D : Automatic modeling of proteins 3D structure
Sequence homology search against proteic databases :
Sequence homology search against nucleic databases :
Patterns and signatures search :
- PATTINPROT: scan a protein sequence or a protein database for one or several pattern(s)
- PROSCAN: scan a sequence for sites/signatures against PROSITE database
Profile building :
- PFMAKE: build a profile with PFTOOLS (PROSITE profile format)
- HMMBUILD: build a profile with HMMER (HMMER profile format)
Multiple alignment:
- Clustal W Protein sequences (Des Higgins, EBI, Hinxton Hall, UK)
- Clustal W DNA sequences (Des Higgins, EBI, Hinxton Hall, UK)
- Multalin Protein sequences (F.Corpet, INRA Toulouse, France)
- Multalin DNA sequences (F.Corpet, INRA Toulouse, France)
Secondary structure prediction :
- Methods:
- SOPM (Geourjon and Deléage, 1994)
- SOPMA (Geourjon and Deléage, 1995)
- HNN (Guermeur, 1997)
- MLRC (Guermeur et al., 1999)
- DPM (Deléage and Roux, 1987)
- DSC (King and Sternberg, 1996)
- GOR I (Garnier et al., 1978)
- GOR III (Gibrat et al., 1987)
- GOR IV (Garnier et al., 1996)
- PHD (Rost and Sander, 1993)
- PREDATOR (Frishman and Argos, 1996)
- SIMPA96 (Levin, 1997)
- Secondary structure consensus prediction
Miscellaneous analysis tools :
Acknowledgements
