Software availability (SOPM) by mail server

deleage at ibcp.fr deleage at ibcp.fr
Fri Mar 18 17:54:17 EST 1994


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		 Institut de Biologie et Chimie des Proteines
			     IBCP-CNRS UPR 412
		      Molecular modeling and NMR group
			  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
			by C. Geourjon & G. Deleage

		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 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 (just the sequence) by Email to deleage at ibcp.fr with
"predict" as the subject. In this case, you should receive 5 files:
Warning: The body of the message must contain just the sequence (no blank,
no title, no signature, no special characters *,>,...)

		1) SOPMANSWER
		2) An abstract of SOPM analysis (H=helix,E=Sheet,C=Coil)
		3) A detailed prediction by SOPM
		4) 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
		5) 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 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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