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