OpenScience / Software / Chemistry / Molecule Viewers and Editors



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AGM Build

A molecular builder and conformational editor. AGM Build can be used for interactive model preparation for molecular dynamics simulations, including association of atom types and partial charges. Features: * Geometry editing * Lattice building * Building of chain molecules (for … Continue reading

Rating: 4.3. From 8 votes.
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Jmol

Jmol is a free, open source molecule viewer for students, educators, and researchers in chemistry and biochemistry. It is cross-platform, running on Windows, Mac OS X, and Linux/Unix systems. It includes a web browser applet that can be integrated into … Continue reading

Rating: 4.2. From 150 votes.
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PyMOL

PyMOL is a molecular graphics system with an embedded Python interpreter designed for real-time visualization and rapid generation of high-quality molecular graphics images and animations. Find PyMOL at: http://pymol.sourceforge.net/

Rating: 4.2. From 115 votes.
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Avogadro

Avogadro is an advanced molecular editor designed for cross-platform use in computational chemistry, molecular modeling, bioinformatics, materials science, and related areas. It offers a flexible rendering engine and a powerful plugin architecture. Find Avogadro at: http://avogadro.cc/wiki/Main_Page

Rating: 4.2. From 57 votes.
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Raster3D

Raster3D is a set of tools for generating high quality raster images of proteins or other molecules. Find Raster3D at: http://www.bmsc.washington.edu/raster3d/raster3d.html

Rating: 4.1. From 22 votes.
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GAMGI

The General Atomistic Modelling Graphic Interface. GAMGI aims to be useful for: 1) the scientific community working in Atomistic Modelling, that needs a graphic interface to build input data and to view and analyse output data, calculated with Ab-Initio and … Continue reading

Rating: 4.0. From 12 votes.
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The CCP1GUI

The CCP1GUI project aims to develop a free, extensible Graphical User Interface to various computational chemistry codes developed by the worldwide academic community, with an emphasis on ab initio Quantum Chemistry codes. Find The CCP1GUI at: http://www.cse.scitech.ac.uk/ccg/software/ccp1gui/

Rating: 4.0. From 9 votes.
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VMD

Useful for viewing PDB files, etc. Relatively powerful configuration for graphical representation of molecule. Find VMD at: http://www.ks.uiuc.edu/Research/vmd/

Rating: 4.0. From 9 votes.
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MOLMOL

MOLMOL is a molecular graphics program for displaying, analyzing, and manipulating the three-dimensional structure of biological macromolecules, with special emphasis on the study of protein or DNA structures determined by NMR. Find MOLMOL at: http://www.mol.biol.ethz.ch/wuthrich/software/molmol/

Rating: 4.0. From 6 votes.
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Zeobuilder

Zeobuilder is a user-friendly GUI toolkit for the construction of advanced molecular models. The program contains several advanced tools to build, align, manipulate and analyze molecular structures. Most of its novel functionality is based on a hierarchical data-structure of reference … Continue reading

Rating: 4.0. From 4 votes.
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