Mechanical Properties of Actin Assemblies

Ghodsi, Hossein | 2010

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  1. Type of Document: M.Sc. Thesis
  2. Language: Farsi
  3. Document No: 40249 (09)
  4. University: Sharif University of Technology
  5. Department: Civil Engineering
  6. Advisor(s): Kazemi, Mohammad Taghi
  7. Abstract:
  8. Actin filaments are the most abundant component of the cellular cytoskeleton and provide shape for the most eukaryotic cells. Actin constitutes 1-10% of the total protein in most cells and is present at even higher concentrations in muscle cells. The functions of actin are directly connected to its mechanical properties, therefore both experimental and computational understanding of the mechanical properties of actin filaments are essential to elucidate their functions in cells and muscles. Actin exists in two forms, actin monomers (G-actin) and actin filaments (F-actin), which have continuous polymerization and depolymerization processes. In the polymerization process, different nucleotides bind at the actin monomers which have significant influence on molecule conformation and mechanical properties. In recent years, there have been significant developments in protein modeling due to fast improvements of experimental and computational facilities. In this dissertation, mechanical properties of actin monomers and trimers are estimated, using steered molecular dynamics (SMD) simulations. In addition, different states of nucleotide bindings, ATP-bound actin, ADP-bound actin and nucleotide-free actin are considered to investigate the effect of nucleotide binding on actin molecule. Using SMD simulations, tension and shear test are performed on different states of actin to estimate the Young’s modulus, shearing modulus of elasticity and persistence length
  9. Keywords:
  10. Elastisity Modulus ; Persistence Length ; Steered Molecular Dynamics ; G-Actin Monomer ; G-Actin Trimer ; Actin Filaments

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