Knowledge Base

Article ID: 403 - Last Modified:

Is there a script I could use that reports the results of structural alignment? Using the Atom Selection interface I can readily identify the residue number, but is there a command to do this, so I can write a script that outputs the corresponding residue numbers?

You could run Protein Structural Alignment from the command line:

$SCHRODINGER/utilities/structalign reference.pdb file1.pdb file2.pdb ...

The output is formatted to look like a sequence alignment, so you should be able to find corresponding residues numbers for all structures.

Keywords: structural alignment , structalign, Maestro

Back to Search Results

Was this information helpful?

What can we do to improve this information?


To ask a question or get help, please submit a support ticket or email us at help@schrodinger.com.
Knowledge Base Search

Type the words or phrases on which you would like to search, or click here to view a list of all
Knowledge Base articles