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Molekel - Wikipedia
From Wikipedia, the free encyclopedia
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Find sources: "Molekel" – news · newspapers · books · scholar · JSTOR
(April 2012) (Learn how and when to remove this message)
Molekel
DeveloperSwiss National Supercomputing Centre
Stable release
5.4 / August 2009; 16 years ago (2009-08)
Operating systemLinux, Microsoft Windows, Mac OS X
TypeMolecular modelling
LicenseGNU General Public License
Websiteugovaretto.github.io/molekel/
Repository
  • github.com/ugovaretto/molekel Edit this at Wikidata
Electron density plot of the norbornyl cation determined using DFT with a mapping of mulliken electrostatic potential- B3LYP/6-31G* in Gaussian03, picture drawn in molekel using Gaussian cube file; Positive charge is colored blue in this picture.

Molekel is a free software multiplatform molecular visualization program.[1] It was originally developed at the University of Geneva by Peter F. Flükiger in the 1990s for Silicon Graphics Computers. In 1998, Stefan Portmann took over responsibility and released Version 3.0. Version 4.0 was a nearly platform independent version. Further developments lead to version 4.3, before Stefan Portmann moved on and ceased to develop the codes. In 2006, Ugo Varetto at the Swiss National Supercomputing Centre (CSCS) restarted the project and version 5.0 was released on 21 December 2006.[2]

Molekel uses VTK and Qwt and therefore as well Qt.

Major features

[edit]
  • Visualization of residues (ribbon or schematic)
  • Complete control over the generation of molecular surfaces (bounding box and resolution)
  • Visualization of the following surfaces:
  • orbitals
  • Isosurface from electron density data
  • Isosurface from Gaussian cube grid data
  • Solvent-accessible surface (SAS)
  • Solvent excluded surface (SES)
  • Van der Waals radii
  • Animation of molecular surfaces
  • Export to PostScript or TIFF

See also

[edit]
  • Free and open-source software portal
  • Gabedit
  • List of molecular graphics systems
  • Molden
  • Molecular graphics
  • Software for molecular mechanics modeling
  • SAMSON
  • List of free and open-source software packages

References

[edit]
  1. ^ Noel O'Blog
  2. ^ Molekel About Archived 2009-08-27 at the Wayback Machine

External links

[edit]
  • Molekel home page
  • v
  • t
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Computational chemistry software
Cheminformatics
Free software
  • Bioclipse
  • Blue Obelisk
  • Chemistry Development Kit
  • ECCE
  • JOELib
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  • Open Babel
  • RDKit
Proprietary
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  • Canvas
  • Chemicalize
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Chemical kinetics
Free software
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Proprietary
  • Autochem
  • Chemical WorkBench
  • CHEMKIN
  • COSILAB
  • DelPhi
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Molecular modelling
and
visualization
List of molecular graphics systems
Free software
  • Ascalaph Designer
  • Avogadro
  • BALL
  • Biskit
  • Gabedit
  • Ghemical
  • Jmol
  • Molekel
  • PyMOL
  • QuteMol
  • RasMol
Proprietary
  • Abalone
  • ACD/ChemSketch
  • Atomistix ToolKit
  • ChemDraw
  • ChemWindow
  • EzMol
  • Gaussian
  • Maestro
  • MarvinSketch
  • MarvinView
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  • Molecular Operating Environment
  • SAMSON
  • Spartan
  • UCSF Chimera
  • VIDA
  • VMD
Molecular docking
List of protein-ligand docking software
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  • AutoDock Vina
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  • rDock
Proprietary
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  • LeDock
  • Molecular Operating Environment
  • OEDocking
Molecular dynamics
Free software
  • CP2K
  • GROMACS
  • LAMMPS
  • OpenMM
  • PLUMED
Proprietary
  • Abalone
  • AMBER
  • CHARMM
  • CPMD
  • Desmond
  • GROMOS
  • NAMD
Quantum chemistry
List of quantum chemistry and solid-state physics software
Free software
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  • ACES (CFOUR)
  • AIMAll
  • BigDFT
  • COLUMBUS
  • CONQUEST
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  • Dalton
  • DIRAC
  • DP code
  • FLEUR
  • FreeON
  • MADNESS
  • MOPAC
  • MPQC
  • NWChem
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  • ORCA (academic)
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  • PARSEC
  • PSI
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  • PySCF
  • Quantum ESPRESSO (PWscf)
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  • SIESTA
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Proprietary
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  • CADPAC
  • CASINO
  • CASTEP
  • CPMD
  • CRUNCH
  • CRYSTAL
  • FHI-aims
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  • GAMESS (US)
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  • Jaguar
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  • ONETEP
  • OpenAtom
  • ORCA (industrial)
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  • Spartan
  • TeraChem
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  • XMVB
Skeletal structure drawing
Free software
  • JChemPaint
  • Molsketch
  • XDrawChem
Proprietary
  • ACD/ChemSketch
  • BIOVIA Draw
  • ChemDoodle
  • ChemDraw
  • ChemWindow
  • JME Molecule Editor
  • MarvinSketch
  • PICTO
Others
  • Aqion
  • EXC code
  • GenX
  • GSim
  • Mercury
  • CrystalExplorer
  • ICM (ICM-Browser)
  • Materials Studio
  • Molden
  • OpenChrom
  • SASHIMI


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