 | Blast Client Software Basic Local Alignment Search Tool. It uses amino acid and nucleic
acid fragments to search for similarities (Updated 7/16/99). |
| Boxshade (see MacBoxshade) |
| Chime Plug-in -
This will allow you to visualize pdb files over the net. This program is a necessity
if you are a chemist or biochemist Versions 2.0 and Version 1.02. MDL (Updated 4/12/99)
|
| Deep Viewer  is an application that provides a user friendly interface
allowing to analyse several proteins at the same time. The proteins can be
superimposed in order to deduce structural alignments and compare their
active sites or any other relevant parts. Amino acid mutations, H-bonds,
angles and distances between atoms are easy to obtain thanks to the
intuitive graphic and menu interface (Updated 3/25/01).
 | Deep
Viewer Tutorial by Gale Rhodes (Updated 3/25/01). |
|
| Generation X: a
computer simulation of population genetics: (available
soon) 1)Gives a better realization of evolution, 2) Illustrates the concepts we learned in class,
3) Shows natural selection in action, 4)Provides insight into population genetics
5) Helps to determine if populations are in Hardy-Weinberg equilibrium 6) Increases understanding about allelic and genotypic frequencies,
and 7)Simulation can be repeated until the calculations are memorized at the Department of Biological Sciences,
Purdue University.
(Updated 7/16/99) |
| Macaw (Version
2.05) is a program for locating, analyzing, and editing blocks of localized sequence
similarity among multiple sequences and linking them into a composite multiple alignment.
It appears that the last revision was in 1995. |
| Mage
(Version 5.4) Three dimensional viewing of molecules. It is
rather primitive by current standards, but it is a good educational tool. This is the
official site of kinemage and it is found at Duke
University (Updated 5/3/99). |
| MacBoxshade
(Ver. 2.15)Pretty Printing and Shading of Multiple-Alignment
files (Updated 10/03/01). |
| MPSA is a software intended to
protein sequence analysis.
|
| NIH-Image a public
domain image processing and analysis program for the Macintosh (Updated 5/4/99). |
| pdb2pov -
Molecular Raytracing. This program allows you to convert pdb formatted files to
povray. |
| Protein
Explorer: View, rotate, explore 3D structure of proteins,
DNA, RNA. Much easier to use than RasMol and much more powerful. Clickable sequence-to-structure. Color protein by
conservation/mutation from multiple protein sequence alignment (Updated
8/20/00). |
| RasMol is the
universal molecular modeling program. I would suggest that everyone should have this
program because it allows visualization of molecules and it does not require too much
memory. It does require, however, that you know its commands.
|
| Rasmol
2.7.1 (Latest Version) RasMol version 2.7.0 combined Roger Sayle's version 2.6.4 with Herbert Bernstein's CIF modified version 2.6_CIF(Rev 2)
and with Arne Mueller's version 2.6x1. This site is maintained by Bernstein
and Sons (Updated 6/15/99). |
| Swiss-PdbViewer
is an application that provides a user friendly interface
allowing to analyse several proteins at the same time. The proteins can be
superimposed in order to deduce structural alignments and compare their
active sites or any other relevant parts. Amino acid mutations, H-bonds,
angles and distances between atoms are easy to obtain thanks to the
intuitive graphic and menu interface (Updated 3/25/01).
|
| STING
|
