Hello Everyone, Stupid question. I see density at my N-terminus that really looks like formyl-Met. I want to model it and refine. I notice REEl has FME ligand for the formyl-methionine, but I dont want to treat it as a "ligand" since it is covalently attached to SER 2. What is the best way to modify the MET residue? Cheers -- Yuri Pompeu
On Fri, Aug 19, 2011 at 10:19 AM, Yuri
Stupid question. I see density at my N-terminus that really looks like formyl-Met. I want to model it and refine. I notice REEl has FME ligand for the formyl-methionine, but I dont want to treat it as a "ligand" since it is covalently attached to SER 2. What is the best way to modify the MET residue?
I think it will still treat it as part of the covalent protein chain if you name it FME and supply the appropriate restraints (you will need to generate the CIF file in eLBOW). -Nat
If FME gives you any trouble you can put Gly 0 in front of Met 1 and delete the CA and N atoms. Then before depositing rename C and O to CN and O1 of FME 1. Obviously more satisfactory to get FME working, though. Yuri wrote:
Hello Everyone, Stupid question. I see density at my N-terminus that really looks like formyl-Met. I want to model it and refine. I notice REEl has FME ligand for the formyl-methionine, but I dont want to treat it as a "ligand" since it is covalently attached to SER 2. What is the best way to modify the MET residue? Cheers
-- Yuri Pompeu _______________________________________________ phenixbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/phenixbb
FME from elbow seems to have refined well. Thanks everyone
-- Yuri Pompeu _______________________________________________ phenixbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/phenixbb
-- Yuri Pompeu
participants (3)
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Edward A. Berry -
Nathaniel Echols -
Yuri