MaSK Features

Key features of MaSK include ability to:

General:

  • Read 7 formats: GAMESS output, GAMESS input, Gaussian output, and Gaussian input, MDL Molfile(.mol, .sd, .sdf), Tripos Mol2 (.mol2), and XMol XYZ (.xyz)
  • Save file as GAMESS input or export geometries into MDL Molfile(.sdf), Tripos Mol2 (.mol2), and XMol XYZ (.xyz) files
  • Visualize molecules in 4 styles: balls and sticks, spheres, tubes, and wireframe
  • Choose between orthographic and perspective view
  • Show/hide hydrogen bonds, atom names and numbers
  • Visualize coordinate axes
  • Measure distances, angles, dihedral angles, and angles between planes (and monitor their changes during optimization)
  • Save images as JPEG, GIF, BMP or PNG graphics files
  • Copy image to the clipboard to paste in other application
  • Modify input geometry as Z-matrix (including automatic and manual atom addition or automatic functional group addition) or Cartesian coordinates
  • Set input options for GAMESS job and save as GAMESS Input file
  • Submit GAMESS (PC GAMESS version) job from within the MaSK
  • Check the status of a PC GAMESS calculation
  • Terminate PC GAMESS calculation

Results:

  • Visualize all steps of optimization as a movie or step-by-step
  • Visualize all optimized points of the Intrinsic Reaction Coordinate (IRC) following
  • Visualize calculated Mulliken (GAMESS and Gaussian) and Lowdin (GAMESS) charges
  • Visualize vibrational modes as animation or as vectors
  • View optimization energy graph (SCF-only energies for Gaussian output)
  • Visualize dipole direction
  • Visualize molecular orbitals with multiple options
  • Visualize electron and spin densities
  • Visualize molecular electrostatic potential plotted onto the electron density
  • Show brief or extended summaries of the results
  • Export Potential Energy Surface scan results from GAMESS calculations to CSV file format for use in spreadsheet applications

Customization:

  • Change text size and color
  • Change background color
  • Choose maximum resolution of the saved images
  • Choose to draw/hide metal-metal bonds
  • Choose to draw/hide metal-nonmetal bonds
  • Change the speed of rotation of the molecule, vibrations, and animation of optimization steps
  • Change atomic parameters for any atom:
    1) Atomic radius
    2) Van der Waals radius
    3) Atom color
  • Modify radius and color of covalent and hydrogen bonds as well as opacity of hydrogen bonds.