Hello everyone,
I have a question about ligand fitting into density.
At this point my maps look quite good with decent density for the peptide (ligand)[Rfactprs 26/31].
I tried using ligandfit by giving it the pdb and mtz of the ligand free model along with peptide.pdb (peptide stripped from a pdb where it was complexed with a homologous protein).
However the output was a ligand.pdb file with a CC of 0.49. I am not sure how to interpret this. Does this mean it could not find the density for the ligand?
Is there a better way to fit the peptide into density?
Thanks,
S
From: [email protected] [mailto:[email protected]] On Behalf Of Sneha Rangarajan
Sent: Wednesday, October 08, 2014 10:30 AM
To: Nathaniel Echols
Cc: [email protected]
Subject: Re: [phenixbb] (no subject)
This was a great idea. My Rfactors after a second round of autobuild are now 25/32. I think it might be getting there afterall ☺
S
From: Nathaniel Echols [mailto:[email protected]]
Sent: Friday, October 03, 2014 3:08 PM
To: Sneha Rangarajan
Cc: Pavel Afonine; [email protected]mailto:[email protected]
Subject: Re: [phenixbb] (no subject)
On Fri, Oct 3, 2014 at 11:58 AM, Sneha Rangarajan