Secondary structure prediction by SOPM (ftp site and Email)

deleage at ibcp.fr deleage at ibcp.fr
Wed Feb 23 11:29:52 EST 1994



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				     by
			  C. Geourjon & G. Deleage

		 Institut de Biologie et Chimie des Proteines
			     IBCP-CNRS UPR 412
		      Groupe de modelisation et RMN
			  7, Passage du vercors
			  69 367 Lyon cedex 07
				  France
			 Tel : (33) 72 72 26 47
			 Fax : (33) 72 72 26 01
			      deleage at ibcp.fr
			      pilote at ibcp.fr

Don't hesitate to contact us in case of problems, bugs or suggestions.

      This is a general annoucement of the availability of SOPM to all
academic  researchers. SOPM (Self Optimized Prediction Method) is a package
to make secondary structure predictions of proteins. This program is
developed for Unix workstations and has been successfully checked onto IBM
rs6000 workstations and SGI.

=========================  SOPM availability ================================
 Free for academic users:

		      Anonymous ftp to ibcp.fr

For companies inquire to:

			   Mr R. Lahana
		       Oxford Molecular SA
		    X- Pole Ecole Polytechnique
		      F-91128 PALAISEAU Cedex
		       Tel: 33 1 69 33 35 90
		       Fax: 33 1 69 33 30 41


=========================  SOPM citation   ================================
The methdod has been described in :
"SOPM : a self optimised prediction method for protein secondary structure
prediction."
C. Geourjon & G. Deleage (1994) Protein Engineering 7, 157-164

=========================  SOPM accuracy   ================================
 Coil      Helix      Sheet             All
    Accuracy
  74.0      66.3       60.9            69.0
    Standard deviations
 9.85      11.09       9.99
    Correlation coeficients
  .49        .53        .51

=========================  SOPM by mail ===================================
Secondary structure prediction by SOPM can be performed by us provided you
send the sequence by Email to deleage at ibcp.fr
In this case, an automatic mail server will send you 3 files:

		1) A detailed prediction of your sequence by SOPM
		2) A consensus secondary structure derived from 4 methods
		    Gibrat et al.,     (1987) J.Mol.Biol. 198, 425-443
		    Levin et al.,      (1986) Febs Lett. 205, 303-308
		    Deleage & Roux     (1987) Prot. Engng. 1, 289-294
		    Geourjon & Deleage (1994) Prot. Engng. 7, 157-164
		3) An extensive search for sites is provided using the
		   PATTERN program (PROSITE)
		    Geourjon & Deleage (1993) CABIOS, 9, 87-91

=========================  SOPM users  ================================
Could you send us your adress (Email is prefered) and your feelings about
your SOPM experience?
		  Many thanks

   =====================================================================
   #  Institut de Biologie et Chimie des Proteines. UPR 412-CNRS       #
   #     *****  *****      ****   *****         Dr Gilbert Deleage     #
   #       #    #    #    #    #  #    #       7, passage du Vercors   #
   #       #    *****     #       #    #    69367 Lyon Cedex 07,FRANCE #
   #       #    #     #   #       #****         Tel: (33) 72-72-26-47  #
   #       #    #     #   #    #  #             Fax: (33) 72-72-26-01  #
   #     *****  ******     ****   #                deleage at ibcp.fr     #
   =====================================================================












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