Paper Citing NAMD - Abstract
Lin, Ying-Wu; Ni, Feng-Yun; Ying, Tian-Lei
Early events in thermal unfolding of apocytochrome b(562) and its double-cysteine mutant as revealed by molecular dynamics simulation
JOURNAL OF MOLECULAR STRUCTURE-THEOCHEM, 898:82-89, MAR 30 2009
Apocytochrome b(562) (apocyt b(562)) with heme group removal and its double-cysteine mutant, dc-apocyt b(562) (Arg98Cys/Tyr101Cys) containing a CXXCH heme-binding motif of cytochrome c, have been subjected to molecular dynamics (MID) simulation at high temperature (500 K). The early events upon thermal unfolding were found to be different between these two apoproteins as obtained from mutation studies. At the same time, the contribution of non-native interactions, such as hydrogen bonds and salt bridges, to protein stabilities were also analyzed in detail. The information provided by MID simulations is valuable for understanding the in vivo formation of b-type as well as c-type heme proteins. (C) 2008 Elsevier B.V. All rights reserved.
