Retrieving full sequence from PDB file
Hello, For the project I am working on, I need all the sequence residues from the pdb file irrespective of whether the residues have atom information or not. I saw that there is a way to write out the residues with atom information from the pdb file. But is there a way to write out all the sequence residues mentioned at the top of the pdb file?
Thanks, Sneha
On 2/7/11 9:23 AM, sneha bairy wrote: > For the project I am working on, I need all the sequence residues from > the pdb file irrespective of whether the residues have atom information > or not. I saw that there is a way to write out the residues with atom > information from the pdb file. But is there a way to write out all the > sequence residues mentioned at the top of the pdb file?
Not with Modeller, no - it only reads the ATOM and HETATM records, not the SEQRES records. But the SEQRES records have a very simple format - it would be easy to write a Perl or Python script to extract that sequence if you can't find an existing piece of software that does it.
Ben Webb, Modeller Caretaker
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sneha bairy