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Membrane interactions control residue fluctuations of outer membrane porins

Besya, A. B ; Sharif University of Technology | 2010

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  1. Type of Document: Article
  2. DOI: 10.1103/PhysRevE.81.051911
  3. Publisher: 2010
  4. Abstract:
  5. Bacterial outer membrane porins (Omp) that have robust β -barrel structures, show potential applications for nanomedicine devices in synthetic membranes and single molecule detection biosensors. Here, we explore the conformational dynamics of a set of 22 outer membrane porins, classified into five major groups: general porins, specific porins, transport Omps, poreless Omps and composed pores. Normal mode analysis, based on mechanical vibration theory and elastic network model, is performed to study the fluctuations of residues of aforementioned porins around their equilibrium positions. We find that a simple modification in this model considering weak interaction between protein and membrane, dramatically enhance the stability of results and improve the correlation coefficient between computational output and experimental results
  6. Keywords:
  7. Conformational dynamics ; Correlation coefficient ; Elastic network models ; Equilibrium positions ; Mechanical vibrations ; Nanomedicines ; Normal mode analysis ; Outer membrane ; Potential applications ; Simple modifications ; Single-molecule detection ; Synthetic membranes ; Weak interactions ; Biosensors ; Medical nanotechnology ; Vibration analysis ; Membranes
  8. Source: Physical Review E - Statistical, Nonlinear, and Soft Matter Physics ; Volume 81, Issue 5 , May , 2010 ; 15393755 (ISSN)
  9. URL: http://journals.aps.org/pre/abstract/10.1103/PhysRevE.81.051911