Biomolecular Structures Group,Glaxo Wellcome Research & Development,Stevenage, Hertfordshire, UK
Version 2.6, August 1995, Version 2.6.4, December 1998
Copyright © Roger Sayle 1992-1999
RasTop is a molecular graphics program intended for the visualisation of proteins, nucleic acids and small molecules based on the popular Rasmol software. The program is aimed at the rapid visualization and analysis of molecules. Downloads: 26 This Week Last Update: 2015-04-24 See Project.
- RasMol 2.7.5 incorporates changes by T. Andrews (via the neartree package). Work on RasMol 2.7.5 supported in part by grant 1R15GM078077-01 from the National Institute of General Medical Sciences (NIGMS), U.S. National Institutes of Health and by grant ER4 from the Office of Biological & Environmental Research (BER), Office of Science.
- The source code mods to RasMol 2.7.2.1 for use of zlib under Mac OS are available for testing. Released by Mamoru Yamanishi myamanishi3@unl.org, 13 July 2001 RasTop 1.3 Features.
- RasMol.Org offers downloads of the latest and most powerful version, along with the corresponding reference manual. The RasMol Classic Site (written in 1995-2000) offers help for beginners and reference materials for advanced users, but these have not been updated to the current RasMol version.
| Author | Version, Date | Copyright |
|---|---|---|
| Arne Mueller | RasMol 2.6x1 May 1998 | © Arne Mueller 1998 |
| Gary Grossman and Marco Molinaro | RasMol 2.5-ucb November 1995 RasMol 2.6-ucb November 1996 | © UC Regents/ModularCHEM Consortium 1995, 1996 |
| Philippe Valadon | RasTop 1.3 August 2000 | © Philippe Valadon 2000 |
| Herbert J. Bernstein | RasMol 2.7.0 March 1999 RasMol 2.7.1 June 1999 RasMol 2.7.1.1 January 2001 RasMol 2.7.2 August 2000 RasMol 2.7.2.1 April 2001 RasMol 2.7.2.1.1 January 2004 RasMol 2.7.3 February 2005 RasMol 2.7.3.1 Apr 06 RasMol 2.7.4 Nov 07 RasMol 2.7.4.1 Jan 08 RasMol 2.7.4.2 Mar 08 RasMol 2.7.5 June 2009 RasMol 2.7.5.1 July 2009 RasMol 2.7.5.2 May 2011 | © Herbert J. Bernstein 1998-2009 |
RasMol 2.7.5 incorporates changes by T. Ikonen, G. McQuillan, N. Darakevand L. Andrews (via the neartree package). Work on RasMol 2.7.5supported in part by grant 1R15GM078077-01 from the National Instituteof General Medical Sciences (NIGMS), U.S. National Institutes of Healthand by grant ER63601-1021466-0009501 from the Office of Biological &Environmental Research (BER), Office of Science, U. S. Department ofEnergy. RasMol 2.7.4 incorporated changes by G. Todorov, Nan Jia,N. Darakev, P. Kamburov, G. McQuillan, and J. Jemilawon. Work on RasMol2.7.4 supported in part by grant 1R15GM078077-01 from the NIGMS/NIH andgrant ER63601-1021466-0009501 from BER/DOE. RasMol 2.7.3 incorporateschanges by Clarice Chigbo, Ricky Chachra, and Mamoru Yamanishi. Workon RasMol 2.7.3 supported in part by grants DBI-0203064, DBI-0315281and EF-0312612 from the U.S. National Science Foundation and grantDE-FG02-03ER63601 from BER/DOE. The content is solely the responsibilityof the authors and does not necessarily represent the official views ofthe funding organizations.
The code for use of RasMol under GTK in RasMol 2.7.4.2 was written byTeemu Ikonen.
and Incorporating Translations by| Author | Item | Language |
|---|---|---|
| Isabel Serván Martínez, José Miguel Fernández Fernández | 2.6 Manual | Spanish |
| José Miguel Fernández Fernández | 2.7.1 Manual | Spanish |
| Fernando Gabriel Ranea | 2.7.1 menus and messages | Spanish |
| Jean-Pierre Demailly | 2.7.1 menus and messages | French |
| Giuseppe Martini, Giovanni Paolella, A. Davassi, M. Masullo, C. Liotto | 2.7.1 menus and messages 2.7.1 help file | Italian |
| G. Pozhvanov | 2.7.3 menus and messages | Russian |
| G. Todorov | 2.7.3 menus and messages | Bulgarian |
| Nan Jia, G. Todorov | 2.7.3 menus and messages | Chinese |
| Mamoru Yamanishi, Katajima Hajime | 2.7.3 menus and messages | Japanese |
Herbert J. Bernstein,Bernstein + Sons, 5 Brewster Lane, Bellport, NY, USA
yaya@bernstein-plus-sons.com
Copyright © Herbert J. Bernstein 1998-2009
The original RasMol manual was created by Roger Sayle. In July 1996,Dr. Margaret Wong of the Chemistry Department, Swinburne Universityof Technology, Australia, made extensive revisions to the RasMol 2.5manual to accurately reflect the operation of RasMol 2.6. Eric Martzof the University of Massachusetts made further revisions. In May1997, William McClure of Carnegie Mellon University reorganized theHTML version of the manual into multiple sections which could bedownloaded quickly and added use of frames. Portions of the 2.7.1version of the RasMol manual were derived with permission fromWilliam McClure's version using Roger Sayle's rasmol.doc forversion 2.6.4 as the primary source. Changes were made inAugust 2000 for RasMol version 2.7.2, January 2001 for RasMolversion 2.7.1.1 and April 2001 for RasMol version 2.7.2.1 andFebruary 2005 for RasMol version 2.7.3.
Edited by Herbert J. Bernstein and Frances C. Bernstein
Translations
Thanks to the efforts of José Miguel FernándezFernández (Departamento de Bioquímica y Biología Molecular. Universidad de Granada.España (jmfernan@ugr.es)) a translation of theManual for Rasmol version 2.7.1 into Spanish is now available.La traducción española del manual de laversión de la Dra. Wong revisada por Eric Martz fue realizada porIsabel Serván Martínez y José Miguel FernándezFernández. La actual traducción del Manual de RasMol 2.7.1ha sido realizada usando como base la anterior de RasMol 2.6 por José Miguel Fernández Fernández.
Thanks to translations by Fernando Gabriel Ranea
IMPORTANT - Copying and Distribution
This version is based directly on RasMol version 2.7.5.1,on RasMol version 2.7.4.2,on RasMol version 2.7.4.1,on RasMol version 2.7.4,on RasMol version 2.7.3.1,on RasMol version 2.7.3, on RasMol version 2.7.2.1.1,on RasMol version 2.7.2, on RasMol version 2.7.1, on RasMolversion 2.6_CIF.2, on RasMol version 2.6x1, on RasMol version2.6.4, and RasMol 2.5-ucb and 2.6-ucb.
Please read the file NOTICE forimportant notices which apply to this package and forlicense terms (GPL or RASLIC).
Contents
- Directories
- ChangeLog -- Full ChangeLog directory
- src -- source code
- mac -- Macintosh build directory
- mswin -- Windows build directory
- doc -- documentation
- data -- sample data files
Introduction
This posting is made to announce the release of RasMol version2.7.5.2 This release is based on RasMol 2.7.5.1.
This is a final update to the 2.7.5 series before release of the 2.7.6 releasecandidates, correcting some minor bugs and speeding up surface renderingsby use of NearTree 3.1. The version of CBFlib used has also been updated.The changes made between the 2.7.5.1 release of 23 July 2009 and the2.7.5.2 release were:
- Faster surface rendering by use of NearTree 3.1
- Updates to GTK version from T. Ikonen
- Use of CBFlib 0.9.2
- Use of CQRlib 1.1.2
- Minor bug fixes
The changes made between the 2.7.5 release candidate release of 17 July 2009and the formal release on 23 July 2009 were:
- Correction to the support for core CIF data file loads that was disabled in themove to CBFlib in place of the internal CIF support.
- Correction to the CCP4 map read logic in the case of symmetrylines. Thanks to Marian Szebenyi for finding this bug.
- Clarification to the install instructions for 64-bit unix systems.Thanks to Marian Szebenyi and Mark Diekhans for pointing out the lackof clarity.
The major changes from the 2.7.4.2 release to the 2.7.5 release include:
- Support for SBEVSL movie commands.
- Support for Lee-Richards surface approximation by contouring pseudo-Gaussianelectron densities.
- Selection of atoms by proximity to map contours
- Coloring of maps by the colors of neighboring atoms
- Significant improvements to the GTK version by Teemu Ikonen
- Support for maps.
- Message and menu translations for Russian, Bulgarian, Japanese and Chinese.Our thanks to G. Pozhvanov, G. Todorov, Nan Jia, Mamoru Yamanishi and Katajima Hajime.
- Fix torsion angle calculation as per bug report and patch by Swati Jain.
- Corrections by Ladislav Michnovic to port to more platforms.
- Code to read remediated PDB entries as suggested by Huanwang Yang
- Updated icons.
- Extended export menus.
This version is available for MS Windows and various unix-systems.As binaries become available, they will be released onhttp://blondie.dowling.edu/projects/rasmolandhttp:/www.sourceforge.net/projects/openrasmol.
For installation instructions see 'INSTALL'.
For a list of open issues in this version, see 'TODO'.
RasMol is a molecular graphics program intended for the visualisationof proteins, nucleic acids and small molecules. The program is aimed atdisplay, teaching and generation of publication quality images. The originalprogram was been developed at the University of Edinburgh'sBiocomputing Research Unit and the Biomolecular Structures Group atGlaxo Research and Development, Greenford, UK.
RasMol reads in molecular co-ordinate files in a number of formats andinteractively displays the molecule on the screen in a variety of colourschemes and representations. Currently supported input file formatsinclude Brookhaven Protein Databank (PDB), Tripos' Alchemy and SybylMol2 formats, Molecular Design Limited's (MDL) Mol file format,Minnesota Supercomputer Center's (MSC) XMol XYZ format, CHARMm format,MOPAC format, CIF format and mmCIF format files. If connectivityinformation and/or secondary structure information is not contained inthe file this is calculated automatically. The loaded molecule may beshown as wireframe, cylinder (drieding) stick bonds, alpha-carbontrace, spacefilling (CPK) spheres, macromolecular ribbons (eithersmooth shaded solid ribbons or parallel strands), hydrogen bonding anddot surface. Atoms may also be labelled with arbitrary text strings.Alternate conformers and multiple NMR models may be specially colouredand identified in atom labels. Different parts of the molecule may bedisplayed and coloured independently of the rest of the molecule orshown in different representations simultaneously. The space fillingspheres can even be shadowed. The displayed molecule may be rotated,translated, zoomed, z-clipped (slabbed) interactively using either themouse, the scroll bars, the command line or an attached dials box.RasMol can read a prepared list of commands from a `script' file (orvia interprocess communication) to allow a given image or viewpoint tobe restored quickly. RasMol can also create a script file containingthe commands required to regenerate the current image. Finally therendered image may be written out in a variety of formats includingboth raster and vector PostScript, GIF, PPM, BMP, PICT, Sun rasterfileor as a MolScript input script or Kinemage.
Mac Os X Download Free
Versions of RasMol have run on a wide range of architectures and systems including SGI, sun4, sun3, sun386i, SGI, DEC, HP and E&S workstations, IBMRS/6000, Cray, Sequent, DEC Alpha (OSF/1, OpenVMS and Windows NT), IBMPC (under Microsoft Windows, Windows NT, OS/2, Linux, BSD386 and *BSD),Apple Macintosh (System 7.0 or later), PowerMac and VAX VMS (under DECWindows). UNIX and VMS versions require an 8bit, 24bit or 32bit XWindows frame buffer (X11R4 or later). The X Windows version of RasMolprovides optional support for a hardware dials box and acceleratedshared memory rendering (via the XInput and MIT-SHM extensions) ifavailable.
Reports of builds and/or problems on various platforms appreciated.
Source Code and Binaries
The complete source codeand user documentation of RasMol 2.7.5.2 may be obtained http://www.sourceforge.net/projects/rasmol.andbyanonymous FTP at:
Rasmol Mac Os X Download 10 11 4
or on the web at:
Mac Os X Download Iso
http://www.sourceforge.net/projects/rasmol.