Structural and dynamic effects of alpha-helix deletion in Sso7d: implications for protein thermal stability
Autor: | Giuseppe Graziano, Antonello Merlino, Lelio Mazzarella |
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Přispěvatelé: | Merlino, Antonello, G., Graziano, Mazzarella, Lelio |
Rok vydání: | 2004 |
Předmět: |
Models
Molecular Protein Folding Time Factors Archaeal Proteins ved/biology.organism_classification_rank.species Biochemistry Protein Structure Secondary Molecular dynamics Structural Biology hyperthermophilic protein • thermal stability • molecular dynamics • essential dynamics • unfolding pathway • Sso7d Denaturation (biochemistry) Thermal stability Computer Simulation Amino Acids Molecular Biology Sequence Deletion ved/biology Chemistry Sulfolobus solfataricus Mutagenesis Water Protein Structure Tertiary Folding (chemistry) DNA-Binding Proteins Crystallography Helix Mutation Thermodynamics Leucine |
Zdroj: | Proteins. 57(4) |
ISSN: | 1097-0134 |
Popis: | Sso7d is a 62-residue protein from the hyperthemophilic archaeon Sulfolobus solfataricus with a denaturation temperature close to 100°C around neutral pH. An engineered form of Sso7d truncated at leucine 54 (L54Δ) is significantly less stable, with a denaturation temperature of 53°C. Molecular dynamics (MD) studies of Sso7d and its truncated form at two different temperatures have been performed. The results of the MD simulations at 300 K indicate that: (1) the flexibility of Sso7d chain at 300 K agrees with that detected from X-ray and NMR structural studies; (2) L54Δ remains stable in the native folded conformation and possesses an overall dynamic behavior similar to that of the parent protein. MD simulations performed at 500 K, 10 ns long, indicate that, while Sso7d is in-silico resistant to high temperature, the truncated variant partially unfolds, revealing the early phases of the thermal unfolding pathway of the protein. Analysis of the trajectories of L54Δ suggests that the unzipping of the N-terminal and C-terminal β-strands should be the first event of the unfolding pathway, and points out the regions more resistant to thermal unfolding. These findings allow one to understand the role played by specific interactions connecting the two ends of the chain for the high thermal stability of Sso7d, and support recent hypotheses on its folding mechanism emerged from site-directed mutagenesis studies. Proteins 2004. © 2004 Wiley-Liss, Inc. |
Databáze: | OpenAIRE |
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