[phenixbb] Option for renumber the pdb

Christina Bourne bournecr at yahoo.com
Thu Feb 27 09:06:46 PST 2014

Since you are already in Phenix - How about the option under "Model tools" called "PDB file editor"?

When you open this option it asks for a pdb file, and once loaded you can select (click on) your chain.  Click "Edit" from the top bar and select "Renumber residues".  It pops up a box asking how much to increment the numbers by and produces the renumbered pdb file.  (Note - it will accept negative numbers as well)

Many other options there too...
Kind regards,

Christina R. Bourne, Ph.D.
Assistant Professor
Dept. of Chemistry and Biochemistry
University of Oklahoma
101 Stephenson Parkway, SLSRC Rm 2610
Norman, OK 73019
Office +1 (405) 325-5348
Mobile +1 (405) 338-5616

On Wednesday, February 26, 2014 11:21 PM, Rojan Shrestha <rojan at riken.jp> wrote:

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?


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