Raster3D Version 2.6
Raster3D
is a set of tools for generating high quality raster
images of proteins or other molecules. The core program renders
spheres, triangles, cylinders, and quadric surfaces with specular highlighting,
Phong shading, and shadowing. It uses an efficient software
Z-buffer algorithm which is independent of any graphics hardware.
Ancillary programs process atomic coordinates from Brookhaven PDB
files into rendering descriptions for pictures composed of ribbons,
space-filling atoms, bonds, ball+stick, etc. Raster3D can also be
used to render pictures composed in other programs such as
Molscript
in glorious 3D with highlights, shadowing, etc. Output is to
pixel image files with 24 bits of color information per pixel.
The current version is 2.6b (last changed: 8-Jul-2001)
New in Version 2.6:
Distributed files
- Raster3D_2.6b.tar.gz
- Source distribution for core programs avs2ps, balls, normal3d, rastep,
ribbon, rods, rings3d, label3d, stereo3d and render.
Makefiles are provided for DEC, SGI, SUNOS, IBM, HP, and linux workstations.
- Raster3D-2.6.2-1.i586.rpm
- Linux binary rpm for version 2.6b built under Mandrake 8.0
- Raster3D-2.6.2-1.src.rpm
- Linux source rpm containing Raster3D_2.6b.tar.gz
- CHANGELOG
- History of recent program changes
Older (obsolete) stuff
- Raster3D_2.5f.tar.gz
- Previous stable version
- preras3d-1.5.tar.Z
- Source distribution for an alternative figure composition tool.
- viewtools.tar.Z
- Mark Israel's viewer/annotator show for SGI workstations
Sample Images
- Image Gallery
- Several figures produced using Raster3D. Each is available here in
either TIFF or JPEG format.
- Examples
- Images produced by the demonstration/verification scripts
in the Raster3D distribution
References
- original implementation:
- Bacon, David J. and Anderson, Wayne F. (1988).
"A Fast Algorithm for Rendering Space-Filling Molecule Pictures."
Journal of Molecular Graphics 6, 219-220.
- version 2.0:
- Merritt, Ethan A. and Murphy, Michael E.P. (1994).
"Raster3D Version 2.0: A Program for Photorealistic Molecular Graphics"
Acta Cryst. D50, 869-873.
- version 2.3:
- Merritt, Ethan A. and Bacon, David J. (1997).
"Raster3D: Photorealistic Molecular Graphics"
Methods in Enzymology 277, 505-524.
Authors
originally written by David J. Bacon and Wayne F. Anderson;
extensions, revisions, modifications, ancillary programs by
Mark Israel, Stephen Samuel, Michael Murphy, Albert Berghuis,
and Ethan A Merritt
- Conscript
- A program for generating electron density isosurfaces
(an alternative to the usual chicken-wire).
MC Lawrence & P Bourke (2000) J Appl Cryst 33, 990-991.
Source and executables available from the Conscript web page:
http://www.bioresi.com.au/conscript.
- ImageMagick
- As a general tool for image viewing and manipulation
(including annotation and format conversion)
I recommend John Christy's ImageMagick, which is
available from the ImageMagick web page at
www.ImageMagick.org
and via anonymous ftp from
ftp.x.org among other places.
- Molscript
- Molscript version 2.0 now has an official web site at
http://www.avatar.se/molscript.
- Ortex
- Patrick McArdle has adapted the Raster3D tools rastep and render
for use with the ORTEX small-molecule package under DOS/Windows.
Sample picture.
Further details from web site
http://www.ucg.ie/cryst/software.htm.
- X3DNA
- Figure generation and analysis tool for RNA and DNA structures.
X3DNA Web site:
http://rutchem.rutgers.edu/~xiangjun/3DNA/.
- XtalView
- Very nice open-source crystallographic package for model-building,
map-fitting, etc. with direct output to Raster3D for figure generation.
XtalView web site
http://www.scripps.edu/pub/dem-web/
FAQ