AMBER Archive (2003)

Subject: atom type

From: Emmanuel Giudice (Emmanuel.Giudice_at_mssm.edu)
Date: Wed Mar 12 2003 - 11:21:18 CST

Hi,

My question could seem trivial but I hope someone would help me.

Could you explain me why the atom type of the atom N1 (of guanine) and
N3 (of Thymine) is NA in the amber prep file all_nuc**.in ?

This atom type is apparently define for sp2 N in 5 memb.ring w/H (cf
comment in the force feald), and I have found two article where the
autor are using other atom type (respectively N* and NC) for the thymine
N3.

Thanks,

Emmanuel G. 

-- 
--------------------------------------------------------------------------------
                                Emmanuel GIUDICE
--------------------------------------------------------------------------------
MOUNT SINAI SCHOOL OF MEDECINE
DEPARTMENT OF PHYSIOLOGY AND BIOPHYSICS                Emmanuel.Giudice_at_mssm.edu
One Gustave L. Levy place, Annenberg Building
21st Floor, Room 78 New York, NY 10028                 Tel-Labo : (212) 241-1613
--------------------------------------------------------------------------------