Hi Mr.Li You may use my program 'get_list_of_all_pair_distances.c' to obtain all pair distances between atoms in a given PDB file. The program will output <line-1> <line-2> <distance> where lines correspond to corresonponding lines in PDB file that have ATOM/HETATM cards; and <distance>es are in ascending order.
You can select that pair of lines which correspond to the pair of atoms from chains you want to find distance. I checked '1jps.pdb' and noticed that there are 3 chains L, H and T. You may need to tailor the above program to tune the output to your specific need. With Regards Kalidas. Y On Tue, Jul 15, 2008 at 4:27 AM, Xue Li <[EMAIL PROTECTED]> wrote: > hello all, > > I am new in this. > > If I have 1JPS.pdb, would someone please tell me how to calculate the atom > distance between antigen and antibody? > > Thank you. > > Li > _______________________________________________ > BBB mailing list > [email protected] > http://www.bioinformatics.org/mailman/listinfo/bbb > -- Kalidas Y http://ssl.serc.iisc.ernet.in/~kalidas
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