MOIL-View
MOIL-View (MOlecules at ILlinois) is a program for SGI and IBM RS/6000 workstations designed to allow the user to view and analyze molecular structures and dynamics. The program is available via anonymous ftp, with full FORTRAN source code and documentation provided. Version 8.0 is a major upgrade from previously available versions.
GENERAL FEATURES
MOIL-View provides both a mouse and menu interface. Users can read/write coordinates in CHARMm CRD, PDB and AMBER formats. OPTIONAL use of MOIL or AMBER topology files for bonding information. Allows rotation, translation etc. of structures. Objects can be displayed as lines, ribbons and/or spheres. Two molecules may be loaded and displayed simultaneously. The program contains an overlap function to minimize the RMSD of selected particles in two molecules. User definable colors and particle selection. Text labels can be fixed to particles or screen location. Facilities to calculate and show distances, angles and torsions, find and display hydrogen bonds. Supports postscript output of structures, including ball-and-stick and space filling. Can also print monomer-based contact maps of molecules. Trajectory files may be read and a movie can be shown. Program will also generate 2D-RMS postscript plots for trajectories with user-definable overlap selection, cluster analysis of trajectories, plots of clusters and clustering information. Trajectory modification, format conversion, frame averaging, particle removal functions also available. Users can plot trajectory data such as distances, angles, torsions, RMS, etc. MOIL-View uses a compression algorithm for faster playback of complicated dynamics scenes. Video support for NTSC/genlock video hardware. Solvent molecules can be added to a structure (shell or box). Full FORTRAN source code provided for ease of modification
OBTAINING MOIL-View
The new anonymous ftp site for MOIL-View is munin.ucsf.edu. Log in as anonymous, type 'cd pub', and 'get MOIL-View.src.V8.SGI.tar.Z'. The IBM RS/6000 version (MOIL-View.src.7.6IBM.tar.Z) has not been fully tested. Documentation is available in postscript (MOIL-View.V8.doc.ps) and text (MOIL-View.V8.doc.txt) versions.
For more information, please contact:
Carlos Simmerling
Department of Pharmaceutical Chemistry
Univ. of California San Francisco
Box 0446
San Francisco, CA 94143 USA
Phone: + 1 415 476 7900
E-mail: carlos@cgl.ucsf.edu
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