Computational Chemistry
Software YellowPages

ANTHEPROT

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 molecular 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.
  • 3D display and handling of PDB molecules (PC and rs6000)

Conditions: Free for academic users:

IBM-PC & IBM Risc 6000 version are available via Anonymous ftp to ibcp.fr The PC version ( /pub/IBMPC/README ) is stored as 3 diskettes located in subdirectories:


/pub/IBMPC/DISK#1
-rw-r--r-- 1 root   system   706143 Sep 16 12:51 ANTHE.EXE
-rw-r--r-- 1 root   system   23222 Sep 09 09:03 BE.EXE
-rw-r--r-- 1 root   system   9045 Sep 09 09:02 INSTALL.BAT

/pub/IBMPC/DISK#2
-rw-r--r-- 1 root   staff   865355 Sep 16 12:56 BASE.EXE
-rw-r--r-- 1 root   staff   23222 Sep 09 09:05 BE.EXE
-rw-r--r-- 1 root   staff   9045 Sep 09 09:05 INSTALL.BAT

/pub/IBMPC/DISK#3
-rw-r--r-- 1 root   staff   1065355 Sep 16 12:56 BASE2.EXE
-rw-r--r-- 1 root   staff   23222 Sep 09 09:05 BE.EXE
-rw-r--r-- 1 root   staff   9045 Sep 09 09:05 INSTALL.BAT

Other Unix systems: versions not yet available

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 including 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 : 3 MS-DOS fomatted HD disks (1.44Mo) or anonymous ftp to ibcp.fr (see above)

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

Contact info

Release 2.0 (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@ibcp.fr
geourjon@ibcp.fr
http://antheprot-pbil.ibcp.fr/Documentation_antheprot.html

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



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