March 27th, 2012 Combine Multiple PDB Files as Models in a Single File

So I found this site that gives a quick script to do this job, but i needed to combine a directory full of inconsistently named docking outputs (pdb files) so I modified it and this is what I came up with:

#!/bin/bash
mkdir 1
echo -n > 1/output.pdb;
j=1;
for i in *.pdb; do
 printf "MODEL %4d\n" $j >> 1/output.pdb;
 grep ATOM $i >> 1/output.pdb;
 printf "ENDMDL\n" >> 1/output.pdb;
 j=`expr $j + 1`
done

Quick and painless. To use it copy & paste the above text into a file and make it executable, or download the compressed file here:

CombinePDB.sh

It should work wherever bash is the shell of choice.