Short help on usage of the ProSAT 2 visualisation tool :

• Java version >=1.5 must be installed and enabled (on browsers).  If you want to be able to open web-links related to annotations, enable pop-ups.

• The main window (and the first to appear) is the tool to select annotations. It presents the possibility to select  annotations according to the groups in the left-hand side of the window. The selected annotations are listed in the "Selection:" column, and they will all be sent to WebMol for 3D visualisation.
• Use left-mouse_click on group names in the tables to select and Ctrl-left_mouse_click to de-select.
• The main window gives the following possibilities:
  
•  "Add New UserSelection" button - to define new groups,
  
• "Remove UserSelection" button - to remove user defined groups,
  
• to select the groups according to which the visualisations will be sorted,
  
• to select the pdb file to show annotations on,
• "Show in 3D" button - to open annotated pdb file in a new WebMol window,
•  "Update in 3D" button -  to refresh existing WebMol visualization windows.
  
• The UserSelection can be created by selecting (with left-mouse_click) annotations in the "Selection:" table and clicking on the "Add New UserSelection" button.
  
• The possibility to save the UserSelection will be provided upon closing of the selection window: - cut and paste the content of the window with annotations into your local xml file for further use.

• Once WebMol has been opened, residues can be selected for highlighting by clicking on the corresponding buttons. A repeated click is needed when the All_Atom representation in Webmol is switched to another representation, to obtain proper highlighting for this representation.
• Use of the Right/Middle mouse button when the mouse is on the residue highlighting buttons will give a pull-down menu allowing additional text information to be displayed and allowing the color of the highlighted residue and corresponding button to be changed.

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