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Getting started

Basic key and mouse bindings.

sargis

This tutorial introduces PMV and demonstrates its basic features. Note, this tutorial applies to version 1.4.3. There have been quite a few changes in PMV since version 1.4.3.
Page 2 of 7.
To get started with PMV, we need molecular data file in PDB or mmCIF format. For example, the screenshot on this page uses one of the smallest molecule in the PDB keratan sulphate (PDB ID: 1KES).
Download 1KES.pdb, click on FileRead Molecule and select 1KES.pdb.
PMV currently supports reading these file formats: pdb, mol2, pdbq, pdbqs, pdbqt, cif, pqr. Click on ‘-‘ in file browser widget to list all supported file extensions.

When molecules are loaded, by default, PMV displays white lines drawn between bonded atoms. You can directly interact with the molecules in the PMV Viewer with your computer’s mouse or touchpad.

  • To move it, click on the right mouse button and move your mouse.
  • To rotate, click and drag middle mouse button.
  • To zoom in or out, click the shift key and use middle mouse buttons.
  • Basic key bindings:

    Press N on the keyboard to bring current object to the center of the screen.
    Press D to toggle depth cueing.
    Press R to reset (i.e. undo all previous transformations).

    Mac users: make sure that middle button is set to "Button 3" in Apple → System Preferences ... → Keyboard & Mouse. You can also emulate three button mouse by going to X11 → Preferences ...

    1KES_lines
     
    by Sargis Dallakyan last modified 2011-11-02 09:39
    Contributors: Ruth Huey, Michel Sanner
    Molecular Graphics Laboratory, TSRI

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