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Molecular structure of the outer bacterial membrane of Pseudomonas aeruginosa via classical simulation
Author(s) -
Shroll Robert M.,
Straatsma T. P.
Publication year - 2002
Publication title -
biopolymers
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.556
H-Index - 125
eISSN - 1097-0282
pISSN - 0006-3525
DOI - 10.1002/bip.10279
Subject(s) - chemistry , membrane , pseudomonas aeruginosa , bacterial outer membrane , ion , crystallography , biophysics , pseudomonas , chemical physics , biochemistry , bacteria , escherichia coli , organic chemistry , genetics , gene , biology
A detailed structural analysis has been performed of the outer bacterial membrane of Pseudomonas aeruginosa using a parameterized classical simulation model (R. D. Lins and T. P. Straatsma, Biophysical Journal, 2001, Vol. 81, pp. 1037–1046) with modest modifications. The structural analysis of the membrane is presented and newly discovered characteristics of the membrane are discussed. Simulations indicate that the relative contribution of different ligands to calcium ion coordination varies across the membrane, while maintaining a constant average coordination number of 6.1. Water penetrates the surface of the membrane to a depth of about 30 Å. The hydration of ions and phosphate groups is shown to depend on location within the membrane. A measure of saccharide residue orientation is defined and average orientations are presented. Saccharide residues possess varying degrees of motion with a trend of greater mobility at the membrane surface. However, their motion is limited and even in the membrane outer core region the average structure appears fairly rigid over a period of 1 ns. © 2002 Wiley Periodicals, Inc. Biopolymers 65: 395–407, 2002