Release Notes

January 13th, 2010: Molegro Molecular Viewer v2.0.0

New Features and Changes:

  • Support for reading Molegro Virtual Docker version 4.0 MVDML files.
  • A new built-in raytracer makes it possible to create publication quality graphics and generate high-resolution output.
  • Graphics improvements: molecular surface rendering and 'tube' backbone rendering has been improved. Wireframe view now shows double, tripple, and delocalized bonds.
  • Tripos atom types. MMV now reads and writes the Tripos atom types in Mol2 files. The Tripos atom types are also used in the PLANTS scoring function.
  • Molecule import: The Mol2 importer now supports metal ions with UNK residue name and the handling of 'Dummy' atom records has been improved. The Mol2 exporter now properly handles molecules with more than 10000 atoms. The importers and exporters now work better with 'unknown' atom types. The PDB parser now reads the atom serial number (it can be inspected in the Properties window). DataSources now support reading of ligands from MVDML files. There is also a new option to import ligands as cofactors (in Import Molecules dialog).

November 11th, 2008: Molegro Molecular Viewer v1.2.0

New Features and Changes:

  • Support for reading Molegro Virtual Docker version 3.0 MVDML files.
  • Sidechains may now be colored according to their hydrophobicity (using the Hydropathy Index introduced by Kyle and Doolittle). The new coloring style can be invoked by choosing the 'Color Proteins by Hydrophobicity' scheme. The molecular surfaces now also use this index when coloring according to hydrophobicity.
  • The logging output directory can now be changed from Preferences.
  • Updated 'Hide Residues' dialog. It is now possible to check whether enabled residues within the specified radius should be shown (useful if different residue types for the whole protein should be enabled or disabled).

Bug Fixes:

  • Removed a bug which under certain conditions could crash MMV when invoking the Sequence Viewer.
  • Modified PDB export so that a numeric index is appended to atom element names. This seems to be a requirement for some third-party PDB importers.
  • Removed a memory leak in the Data Sources import system.

April 14th, 2008: Molegro Molecular Viewer v1.1.0

New Features and Changes:

  • Support for Unicode: A new preference option has been added: Parsing | Default File Encoding. This setting is used when importing and exporting SDF, Mol2, or PDB files. MVDML and other XML-based files are always encoded in UTF-8 format.
  • Pose Organizer speed improvements: it is now much faster to apply MDM-models (created by Molegro Data Modeller or the Data Analyzer in MVD) and to inspect the MVDResults in the Data Analyzer.
  • Pose Organizer: default sorting criteria is now changed from 'Ligand + MolDockScore' to 'Ligand + Rerank Score'.
  • Added check (on first startup) for whether 'check for updates on startup' should be enabled.
  • Added support for file associations on Mac OS X for Mol2/SDF/PDB files (mol2, sdf, sd, mdl, mol, pdb, ent) and MVD workspace files (MVDML).

Bug Fixes:

  • Preferences: the protein size threshold check counted all atoms (including hydrogens). Now only heavy atoms are counted.
  • The Pose Organizer would crash if the pose referred to in the MVDResults file was missing or corrupted and the context menu was accessed.
  • The Pose Organizer would sometimes crash in dynamic mode, when changing the visualization scheme or graphical options.

Jan 14th, 2008: Molegro Molecular Viewer v1.0.0

First public release.