ANTHEPROT: A package for protein sequence analysis

G.Delage deleage at ibcp.fr
Thu Sep 2 08:57:03 EST 1993



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				by
		       G.Deleage & C. Geourjon

      This is a general annoucement of the availability of ANTHEPROT  to all
academic  researchers. ANTHEPROT (ANalyze THE PROTeins) is a package to make
protein sequence analysis such as alignment, secondary structure predictions,
sites & function detection,  physico-chemical profiles,  homology search and
3D display of protein structures.   This program is now available either for
IBM  RISC 6000 workstations  or  IBM PC compatible microcomputers.  The main
feature  of  ANTHEPROT  is that it is fully interactive  within  a graphical
interface. No particular knowledge about  computers is  needed and any mole-
cular biologist is able to use it.

The main methods are:
	* Input, addition or modification of sequences (FASTA format).
	* Edition (graphic display of sequence, molecular weight,...).
	* Extraction of a sequence from databases (SWISSPROT).
	* Search for subsequences (with pattern matching approach).
	* Dot matrix plot (4 substitution matrix).
	* Secondary structure prediction (6 methods).
	* Profile analysis (Hydrophobicity, flexibility, solvant
	  accessibility, membrane spanning regions, antigenicity,...).
	* Amphiphilicity of secondary structure.
	* Prediction of the cleavage site of signal peptide.
	* Helical wheel projection.
	* Protein digestion and RP-HPLC simulations.
	* Circular dichroism spectra analysis.
	* Search for pattern of biological sites and functions (PROSITE).
	* Matrix profile analysis of blocks (BLOCKS.DAT).
	* Multiple alignment methods.
	* Fasta graphical interface.

IBM RISC 6000 version
=====================

       This version can be considered as a molecular graphic software that
is  very  useful  to  those  who  want to play with molecular modelling of
proteins. These graphic capabilities are combined with many powerful tools
to analyze a protein sequence and structure.
      The ANTHEPROT package is made of more than 71 submenus which account
for  about 30 different methods of protein sequence analysis. The complete
package represents:

			  50 000 lines of source code
			     500 subroutines
		      1 3000 000 octets of source code
		      2 6800 000 octets for the antheprot executable file

  Systems and materials
  ---------------------
	 ANTHEPROT can run on all IBM Risc 6000 computer equipped with a 3 D
graphic adapter (with or without Z buffer, 8 or 24 bits plane) with graPHIGS
libraries installed (libgP.a).
	 The perfect configuration :
IBM Risc 6000 (any model of CPU from 220 to 580) with at least 32 Mo of RAM),
valuators,  LPFK, 3 D+ graphic adapter with 24 bits plane + Z buffer or GT4x
and  GTO  graphic  cards.   About  160  Mo of disk place is needed since the
SWISSPROT and the NBRF/PIR protein sequence databases are also included.

Distribution support   : 150Mo streamer cartridge.

References:
	      C. Geourjon, G. Deleage and B. Roux
	      ANTHEPROT : An interactive graphic software for analyzing
	      protein structures from sequences.
	      J. Mol. Graph., 1991, 9, 188-190

	      Geourjon C., Deleage G.
	      Interactive and graphic coupling between multiple alignments,
	      secondary structure predictions and motif/pattern scanning
	      into proteins.
	      Comput. Appl. Biosci. 9:87-91(1993).

	      G. Deleage and C. Geourjon
	      An interactive graphic program for calculating secondary
	      structures content of proteins from circular dichroism spectrum.
	      CABIOS, 1993, 9, 197-199


IBM PC compatible version
=========================
       The methods are essentailly the same than in the RISC 6000 except for
the 3D  display module. ANTHEPROT works onto all 80x86 with x>=2 processors.
Math  coprocessor is fully supported.  The total  disk space needed is about
5Mo. It is supplied onto 2 HD (1.44Mo) disks. An automatic installation menu
is available by typing A:install The maximal graphic resolution supported is
VGA (640x480). The program can be fully mouse driven (Microsoft compatible).

Distribution support   : 2 MS-DOS fomatted HD disks (1.44Mo)

References:    G. Deleage, FF Clerc and B Roux
	       ANTHEPROT: IBM PC and Apple Macintosh versions.
	       CABIOS, (1989) 5, 159-160

	       G. Deleage, FF Clerc, B Roux and DC Gautheron
	       ANTHEPROT: A package for protein sequence analysis using a
	       microcomputer.
	       CABIOS, (1988) 5, 159-160

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



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