Abstract:
:A 10-ns molecular dynamics simulation of mouse acetylcholinesterase was analyzed, with special attention paid to the fluctuation in the width of the gorge and opening events of the back door. The trajectory was first verified to ensure its stability. We defined the gorge proper radius as the measure for the extent of gorge opening. We developed an expression of an inter-atom distance representative of the gorge proper radius in terms of projections on the principal components. This revealed the fact that collective motions of many scales contribute to the opening behavior of the gorge. Covariance and correlation results identified the motions of the protein backbone as the gorge opens. In the back-door region, side-chain dihedral angles that define the opening were identified.
journal_name
Biophys Jjournal_title
Biophysical journalauthors
Tai K,Shen T,Börjesson U,Philippopoulos M,McCammon JAdoi
10.1016/S0006-3495(01)75736-0subject
Has Abstractpub_date
2001-08-01 00:00:00pages
715-24issue
2eissn
0006-3495issn
1542-0086pii
S0006-3495(01)75736-0journal_volume
81pub_type
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