Abstract:
:Some recent papers clearly indicate that the cytoplasmic domain of KcsA plays a role in pH sensing. We have performed, for the first time, a targeted molecular dynamics (TMD) simulation of the opening of full-length KcsA at pH 4 and pH 7, with a special interest for the cytoplasmic domain. Association energy calculations show a stabilization at pH 7 confirming that the protonation of some amino-acids at pH 4 in this domain plays a role in the opening process. A careful analysis of the pH dependent charges borne by residues in the cytoplasmic domain and their interactions confirms some literature experimental data and permits to give further insight into the role played by some of them in the opening process.
journal_name
J Mol Modeljournal_title
Journal of molecular modelingauthors
Li Y,Barbault F,Delamar M,Zhang R,Hu Rdoi
10.1007/s00894-012-1726-3subject
Has Abstractpub_date
2013-04-01 00:00:00pages
1651-66issue
4eissn
1610-2940issn
0948-5023journal_volume
19pub_type
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