Oct 21 2010 Feedback.
Contents
 
Introduction
How To Guide
Getting Started
Molecular Graphics
Slides and Documents
 Animations
 Slides
 Slides
 Edit Slides
 Effects
 Documents
ActiveICM
Movie Making
Sequences & Alignments
Protein Structure Analysis
Protein Superposition
Crystallographic Analysis
Homology & Modeling
3D Predict
Molecular Mechanics
Cheminformatics
Chemsitry Menu
Docking
Ligand Editor
Tables
Local Databases
FAQs
Tutorials
 
Index
PrevICM User's Guide
5.2 Making Molecular Slides
Next

This tutorial takes you through the steps to create a series of fully interactive 3D slides. The slides can then be embedded into the web, or PowerPoint using ActiveICM or viewed in ICM-Browser (or ICM-Pro).

To begin making ICM Molecular Slides:

  • First load the structure or structures you wish to display in your first slide. Additional structures, labels etc and text can be added at any point during the slide making process. In this example we will load the PDB file 1XWS a PIM1 kinase.

  • Next, we will convert the PDB file to an ICM object so we can make slides of the ligand-receptor hydrogen bonds and binding pocket surface.

  • Now we are going to prepare the first slide by rotating the protein structure to an orientation which allows the viewer to see the key features of the kinase. For example the bulge in the hinge region (between the N- and C- lobes) which is unique to PIM proteins.

  • Next, make the first slide by clicking on the camera button at the bottom of the graphical user interface.

  • Once you have clicked on the camera button you will see that the first slide has been generated. The first slide is shown in the ICM Workspace window as shown below.

  • Slides can consist of Static views or Transitions and Animations. Here we will zoom into the flexible glycine rich region of the kinase which lays across the roof of the ATP-binding pocket. Click on the camera button and make the second slide

  • Next, we will make a slide of the surface of the ligand binding pocket colored by binding property.

  • Now save the document as an icb file. Go to File/Save as...


Prev
Save
Home
Up
Next
Slides

Copyright© 1989-2010, Molsoft,LLC - All Rights Reserved.
This document contains proprietary and confidential information of Molsoft, LLC.
The content of this document may not be disclosed to third parties, copied or duplicated in any form,
in whole or in part, without the prior written permission from Molsoft, LLC.