README.nacontacts Home Page: Richardsons' Laboratory J. Michael Word - 5/2000

NAcontacts is a perl script which will read a pdb file with hydrogens and write a table of contact information between nucleic acid bases in different layers.



nacontacts [-flag] pdbfileH [bpfile] > layerfile


flag action
none   base layer to base layer contacts written
-b   base-to-base contacts between layers written
-l   dumps the base pairs file, which can be edited and then included in a rerun
-n   requests no kinemage output
-s   list each side of each layer in output, lists both A->B & B->A

J. Michael Word or
David C. Richardson
Biochemistry Department
Duke University
Durham, NC USA 27710