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Release 2.0
by
C. Geourjon & G. Deleage
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
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.
* 3D display and handling of PDB molecules (PC and rs6000)
Conditions:
===========
Free for academic users:
IBM-PC & IBM Risc 6000 version:
Anonymous ftp to ibcp.fr
PC version:
/pub/ANTHEPROT/IBMPC
As 3 diskettes located in subdirectories:
DISK#1:
total 1560
drwxr-xr-x 2 root system 512 Jun 29 18:29 .
drwxr-xr-x 5 ftp staff 512 Oct 13 15:45 ..
-rw-r--r-- 1 root system 751397 Oct 13 14:35 ANTHE.EXE
-rw-r--r-- 1 root system 23222 Nov 4 1993 BE.EXE
-rw-r--r-- 1 root system 10268 Nov 25 1993 INSTALL.BAT
DISK#2:
total 1928
drwxr-xr-x 2 root system 512 Jun 29 18:29 .
drwxr-xr-x 5 ftp staff 512 Oct 13 15:45 ..
-rw-r--r-- 1 root system 938635 Sep 13 15:59 BASE.EXE
-rw-r--r-- 1 root system 23222 Nov 25 1993 BE.EXE
-rw-r--r-- 1 root system 10268 Nov 25 1993 INSTALL.BAT
DISK#3:
total 1992
drwxr-xr-x 2 root system 512 Jun 29 18:29 .
drwxr-xr-x 5 ftp staff 512 Oct 13 15:45 ..
-rw-r--r-- 1 root system 971683 Sep 13 16:01 BASE2.EXE
-rw-r--r-- 1 root system 23222 Nov 25 1993 BE.EXE
-rw-r--r-- 1 root system 10268 Nov 25 1993 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:
60 000 lines of source code
600 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.
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 from your hard disk. The maximal graphic
resolution supported is VGA (640x480). The program can be fully mouse driven
(Microsoft compatible). For 3D display of PDB files a 80486 DX is welcome!!!
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 #
=====================================================================
