On 04/02/2016 05:10 AM, Smith Liu wrote:
> Dear All,
>
> Suppose I have a pdb for a protein containing 12 identical chains, with each chain containing 1000 residues (Resi 1-1000). Is any server or software available by which I can save a pdb containing all above 12 chains but with each chain only containing the coordinates for resi 1-500?
>
> Smith
>
You can do this with a text editor, or use CCP4 pdbset program to renumber the unwanted residues to chain Z and select chains not Z:
pdbset xyzin /a/pdb/pdb1ppj.ent xyzout test.pdb <<eof
renumber 501 501 to 9999 CHAIN A to Z
renumber 501 501 to 9999 CHAIN B to Z
renumber 501 501 to 9999 CHAIN C to Z
renumber 501 501 to 9999 CHAIN D to Z
renumber 501 501 to 9999 CHAIN E to Z
renumber 501 501 to 9999 CHAIN F to Z
renumber 501 501 to 9999 CHAIN G to Z
renumber 501 501 to 9999 CHAIN H to Z
renumber 501 501 to 9999 CHAIN I to Z
renumber 501 501 to 9999 CHAIN J to Z
renumber 501 501 to 9999 CHAIN K to Z
renumber 501 501 to 9999 CHAIN L to Z
select chain A B C D E F G H I J K L
eof
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