protein modeling with discovery studio
DESCRIPTION
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.TRANSCRIPT
12.10.2010
Kisun Pokharel
Protocols
Graphics Window
Hierarchy view
Toolbars
Command menus
Table view
Jobs explorer
Protocols explorer
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.
Shortcuts to menu commands
Add or hide toolbars from View|Toolbars
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
Advanced modeling and analysis tasks that are computed by DS server
Protocols panel can be visualized from: View|Explorers|Protocols
TO browse files created by discovery studio and the files in hard drive
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
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
NO WWW or printed tutorials
Built-in extensive tutorials and help system
Can be browsed from
Help|Help Topics/Getting Started/Tutorials