AMBER Archive (2002)

Subject: Z DNA

From: Sue Heavner (sheavner_at_hsc.wvu.edu)
Date: Tue Sep 17 2002 - 14:55:04 CDT

Hi:
We are modeling polyCG 10mers in the B and Z DNA conformations with and without modifications to G6. After equilibrating the systems and running 2ns dyanamics runs we are analyzing the data. The relaive stabilities as reported by mm_pbsa are not quite what we expected. We were wondering if anyone elso has modeled Z DNAs with amber and if there are any special issues or problems. Thank-you, Sue Heavner