Introduction to Discovery Studio as part of the hands on Demonstration organized at Structural Bioinformatics Laboratory, Åbo Akademi University. The tutorials are available upon request.

1. 12.10.2010
Kisun Pokharel

2. Command menus
Toolbars
Protocols
Hierarchy
view
Graphics Window
Protocols explorer
Table view
Jobs explorer

3.  File menu: commands for tasks such as opening files, saving files, printing,
and viewing file properties
 Edit menu: Commands for tasks such as selecting, copying, pasting, and
setting preferences
 View menu: Commands for tasks such as changing the way objects appear in
various views and for choosing which views should be shown or hidden
 Chemistry menu: Commands for taksks that modifythe chemical make up of
the molecules
 Structure menu: commands for tasks such as adding or removing labels,
calculating solvent accessibility, cleaning up geometry, adding surface charges
and superimposing multiple molecules
 Sequence menu: commands to manage protein sequences and protein
sequence alignments
 Chart menu: commands to create modify adifferent plot types
 Script menu: commands that run scripts for visualization, slection, structure
editing, and ligand interactions
 Window: Commands that allow you to control the display of open windows
 Help: Commands to access the Discovery studio help system and the accelerys
website.

4.  Shortcuts to menu commands
 Add or hide toolbars from
View|Toolbars

5.  Contain methods that perform quick
operations on selected objects and are
usually performed locally, as opposed
to protocols which are always sent to
the server for processing.
 Tools panel can be made visible from
view|Explorers|tools

6.  Advanced modeling and analysis tasks
that are computed by DS server
 Protocols panel can be visualized from:
View|Explorers|Protocols

7.  TO browse files created by discovery
studio and the files in hard drive

8.  For selecting atoms, amino acids
or molecules
 Selections can be made for 3D-
view, Data table and the
sequence window too.
 The hierarchy panel is opened
from view|Hierarchy

9.  Shows data and values associated to the
molecular structure
 The data can be viewed, modified and sorted in
the data table
 Value in gray background can’t be modified
 Open data table by View|Data table

10.  NO WWW or printed tutorials
 Built-in extensive tutorials and help system
 Can be browsed from
Help|Help Topics/Getting Started/Tutorials