AMBER Archive (2009)
Subject: [AMBER] partial charge and topology of intrastrand cross-link DNA
From: Shuang Ding (sd517_at_nyu.edu)
I try to perform MD simulations of 11mer DNA duplexes which have (1,2) or (1,3) intrastrand cross-links. One of the modified base formed bonds directly with nearby base.
Any suggestion is appreciated. Many thanks!