Mar 8 2010
Contents
 
Introduction
How To?
Menu Options
Graphics Tools
Tabs
Selections
 Graphical
 Workspace
 Neighbors
 Alignment and Table
 Links
Tables
Local DB
Sequences
Homology and Modelling
Working with Chemistry Tools
Chemsitry Menu
Docking
Ligand Editor
Animations, Slides, & Documents
ActiveICM
Movie Making
Frequently Asked Questions
Tutorials
 
Index
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6.5 Making Links
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It is sometimes necesary to make links between sequences objects and alignments. A link enables you to make selections in one environment such as an alignment and then these selections are transfered to the object such as the PDB structure displayed.

If a link is made then a symbol will be displayed next to the object in the ICM workspace. In the example shown below subunit_a of the X-ray structure 1ql6 is linked to the sequence 1ql6_a and the alignment called 'alig'.

If an object is linked to an alignment a symbol as shown below will be displayed.

To link a sequence from an object - extract the sequence from the object.

  • Right click on the object in the ICM workspace.
  • Select extract sequence.

To link a sequence and object to an alignment.

Use the extracted sequence as described above to build your alignment.

In addition a link can be made between a structure and alignment by:

  • Bioinfo/Link to Structure.
  • Enter alignment name.
  • OK


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