Oct 21 2010 Feedback.
Contents
 
Introduction
How To Guide
Getting Started
Molecular Graphics
Slides and Documents
ActiveICM
Movie Making
Sequences & Alignments
Protein Structure Analysis
 Related Chains
 Calculate RMSD
 Contact Areas
 Closed Cavities
 Surface Area
 Distances
 Planar Angle
 Dihedral Angle
 Ramachandran Plot
 Ramachandran Export
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
9.10 Export Ramachandran Plot
Next

  • Read in a protein structure (File/Open or PDB Search)
  • Select the structure you wish to build the plot for. You can do this by double clicking on the name of the structure in the ICM Workspace (a selection is highlighted blue in the ICM Workspace and green crosses in the graphical display) or you can use the right-click button anddrag it over the whole structure in the graphical display.
  • Tools/Analysis/Ramachandran Plot Export

A postscript viewer needs to be downloaded onto your machine in order to view the plot. This can be downloaded from http://www.cs.wisc.edu/~ghost/. Once this software is downloaded you need to tell ICM where it is located by typing the pathname into File/Preferences.
NOTE: You can always export the plot as an image directly in ICM without exporting. You can do this by right clicking on the plot and select save as image. Another approach could be to export the RAMA table to Excel and use the plotting tools there. You can do this by right clicking on the table name tab and selecting "Export to Excel" or save as ".csv".


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