Those ccp4 options are excellent. Another option is the easy-to-use PDB Editor http://www.bioinformatics.org/pdbeditor/wiki/. I find it to be very versatile for editing PDB files. Blaine Mooers Assistant Professor Department of Biochemistry and Molecular Biology University of Oklahoma Health Sciences Center S.L. Young Biomedical Research Center Rm. 466 Shipping address: 975 NE 10th Street, BRC 466 Oklahoma City, OK 73104-5419 Letter address: P.O. Box 26901, BRC 466 Oklahoma City, OK 73190 office: (405) 271-8300 lab: (405) 271-8313 fax: (405) 271-3910 e-mail: [email protected] Faculty webpage: http://www.oumedicine.com/department-of-biochemistry-and-molecular-biology/f... X-ray lab webpage: http://www.oumedicine.com/department-of-biochemistry-and-molecular-biology/d... Small Angle Scattering webpage: http://www.oumedicine.com/docs/default-source/ad-biochemistry-workfiles/smal... ________________________________________ From: [email protected] [[email protected]] On Behalf Of Jeffrey, Philip D. [[email protected]] Sent: Thursday, February 27, 2014 2:04 AM To: Rojan Shrestha; PHENIX user mailing list Subject: Re: [phenixbb] Option for renumber the pdb Both CCP4's PDBSET and COOT should do what you want (i.e. offset the numbering by 250) Phil Jeffrey Princeton ________________________________ From: [email protected] [[email protected]] on behalf of Rojan Shrestha [[email protected]] Sent: Thursday, February 27, 2014 12:21 AM To: PHENIX user mailing list Subject: [phenixbb] Option for renumber the pdb Hello, I have found the program phenix.pdbtools. Maybe, it can renumber residues of pdb. I have found the options renumber_residues options but I am unable to see the options for starting residues. I have pdb starts from 1 and want to renumber 1 into 250. Can somebody tell me how to put the option for starting residue? Regards, Rojan