Analysis of the Dynamics ofRhizomucor mieheiLipase at Different Temperatures
| Autor: | Søren Toxvaerd, Allan Svendsen, Günther H.J. Peters, Kim Vilbour Andersen |
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| Rok vydání: | 1999 |
| Předmět: |
Models
Molecular Magnetic Resonance Spectroscopy Time Factors biology Hydrogen bond Chemistry Temperature Thermodynamics Rhizomucor miehei Lipase General Medicine Atmospheric temperature range biology.organism_classification Protein Structure Secondary Random coil Crystallography Molecular dynamics Structural Biology Radius of gyration biology.protein Periodic boundary conditions Rhizomucor Molecular Biology |
| Zdroj: | Journal of Biomolecular Structure and Dynamics. 16:1003-1018 |
| ISSN: | 1538-0254 0739-1102 |
| DOI: | 10.1080/07391102.1999.10508310 |
| Popis: | The dynamics of Rhizomucor miehei lipase has been studied by molecular dynamics simulations at temperatures ranging from 200-500K. Simulations carried out in periodic boundary conditions and using explicit water molecules were performed for 400 ps at each temperature. Our results indicate that conformational changes and internal motions in the protein are significantly influenced by the temperature increase. With increasing temperature, the number of internal hydrogen bonds decreases, while surface accessibility, radius of gyration and the number of residues in random coil conformation increase. In the temperature range studied, the motions can be described in a low dimensional subspace, whose dimensionality decreases with increasing temperature. Approximately 80% of the total motion is described by the first (i) 80 eigenvectors at T=200K, (ii) 30 eigenvectors at T=300K and (iii) 10 eigenvectors at T=400K. At high temperature, the alpha-helix covering the active site in the native Rhizomucor miehei lipase, the helix at which end the active site is located, and in particular, the loop (Gly35-Lys50) show extensive flexibility. |
| Databáze: | OpenAIRE |
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