Jul 23 2008
Contents
 
Introduction
Overview - RECOMMENDED READING FOR NEW ICM USERS
File Menu
Graphics Move Tools
Display Tab
Light Tab
Labels Tab
PDB Search Tab
Meshes Tab
View Menu
Selections
Tables
Local DB
Sequences
Bioinfo Menu
Tools Menu - Xray
Tools Menu - 3D Predict
Tools Menu - Analysis
Tools Menu - Superimpose
Homology and Modelling
Working with Chemistry Tools
Chemsitry Menu
Docking
Ligand Editor
Animations, Slides, & Documents
ActiveICM
Movie Making
Frequently Asked Questions
Tutorial - Graphical Display
 Getting Started
 Making Graphical Selections
 Sequence Selections
 Spherical Selection
 Filter Selection
 Residue Propogate
 Molecule Representations
 Labeling and Annotation
Molecular Document
Tutorial - Working with PDB Protein Structures
Tutorial - Working with Sequence Alignments
Tutorial - Ligand Binding Pocket Analysis
Tutorial - Homology and Modeling Tools
Tutorial - Crystallographic Analysis Tools
Tutorial - Working with Chemical Tables
Tutorial - Working with the Molecular Editor
Tutorial - Chemical Searching
Tutorial - Docking and Virtual Ligand Screening
 
Index
PrevICM User's Guide
29.4 Making a Spherical Selection.
Next

In this example we will select the residues surrounding a ligand.

  • PDB Search tab (PDB code 1MVC)
  • Right click on the ligand bm6 in the ICM Workspace.
  • Select the Neighbors option

  • Enter Radius 5.
  • Enter type same_object_other_chains
  • Choose exclude source and unselect water.
  • You will see green crosses surrounding the ligand binding pocket as shown below.


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