Multiple molecular dynamics simulations of human LOX‐1 and Trp150Ala mutant reveal the structural determinants causing the full deactivation of the receptor

作者: Federico Iacovelli , Fabio Giovanni Tucci , Gabriele Macari , Mattia Falconi

DOI: 10.1002/PROT.25344

关键词:

摘要: Multiple classical molecular dynamics simulations have been applied to the human LOX-1 receptor clarify role of Trp150Ala mutation in loss binding activity. Results indicate that substitution this crucial residue, located at dimer interface, markedly disrupts wild-type dynamics. The causes an irreversible rearrangement subunits interaction pattern protein allows maintaining a specific symmetrical motion monomers. dislocation determines linearity arginines residues composing basic spine and consequent alteration long-range electrostatic attraction substrate. Moreover, anomalous arrangement observed mutated also affects integrity hydrophobic tunnel, actively involved short-range recognition combined effect these structural rearrangements generates impairing function.

参考文章(48)
Mark James Abraham, Teemu Murtola, Roland Schulz, Szilárd Páll, Jeremy C. Smith, Berk Hess, Erik Lindahl, GROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers SoftwareX. ,vol. 1, pp. 19- 25 ,(2015) , 10.1016/J.SOFTX.2015.06.001
Luciano Cominacini, Anna Rigoni, Anna Fratta Pasini, Ulisse Garbin, Anna Davoli, Mario Campagnola, Antonio M. Pastorino, Vincenzo Lo Cascio, Tatsuya Sawamura, The Binding of Oxidized Low Density Lipoprotein (ox-LDL) to ox-LDL Receptor-1 Reduces the Intracellular Concentration of Nitric Oxide in Endothelial Cells through an Increased Production of Superoxide Journal of Biological Chemistry. ,vol. 276, pp. 13750- 13755 ,(2001) , 10.1074/JBC.M010612200
Siliva Biocca, Federico Iacovelli, Sara Matarazzo, Giulia Vindigni, Francesco Oteri, Alessandro Desideri, Falconi, Mattia., Molecular mechanism of statin-mediated LOX-1 inhibition Cell Cycle. ,vol. 14, pp. 1583- 1595 ,(2015) , 10.1080/15384101.2015.1026486
Silvia Biocca, Tania Arcangeli, Elisa Tagliaferri, Barbara Testa, Giulia Vindigni, Francesco Oteri, Alessandra Giorgi, Federico Iacovelli, Giuseppe Novelli, Alessandro Desideri, Mattia Falconi, Simulative and experimental investigation on the cleavage site that generates the soluble human LOX-1. Archives of Biochemistry and Biophysics. ,vol. 540, pp. 9- 18 ,(2013) , 10.1016/J.ABB.2013.10.001
Silvia Biocca, Mattia Falconi, Ilaria Filesi, Francesco Baldini, Lucia Vecchione, Ruggiero Mango, Francesco Romeo, Giorgio Federici, Alessandro Desideri, Giuseppe Novelli, Functional Analysis and Molecular Dynamics Simulation of LOX-1 K167N Polymorphism Reveal Alteration of Receptor Activity PLoS ONE. ,vol. 4, pp. e4648- ,(2009) , 10.1371/JOURNAL.PONE.0004648
Glenn J. Martyna, Douglas J. Tobias, Michael L. Klein, Constant pressure molecular dynamics algorithms Journal of Chemical Physics. ,vol. 101, pp. 4177- 4189 ,(1994) , 10.1063/1.467468
Luciano Cominacini, Anna Fratta Pasini, Ulisse Garbin, Anna Davoli, Maria L. Tosetti, Mario Campagnola, Anna Rigoni, Antonio M. Pastorino, Vincenzo Lo Cascio, Tatsuya Sawamura, Oxidized Low Density Lipoprotein (ox-LDL) Binding to ox-LDL Receptor-1 in Endothelial Cells Induces the Activation of NF-κB through an Increased Production of Intracellular Reactive Oxygen Species Journal of Biological Chemistry. ,vol. 275, pp. 12633- 12638 ,(2000) , 10.1074/JBC.275.17.12633
William L. Jorgensen, Jayaraman Chandrasekhar, Jeffry D. Madura, Roger W. Impey, Michael L. Klein, Comparison of simple potential functions for simulating liquid water The Journal of Chemical Physics. ,vol. 79, pp. 926- 935 ,(1983) , 10.1063/1.445869
HaJeung Park, Floyd G. Adsit, Jeffrey C. Boyington, The 1.4 Å Crystal Structure of the Human Oxidized Low Density Lipoprotein Receptor Lox-1 Journal of Biological Chemistry. ,vol. 280, pp. 13593- 13599 ,(2005) , 10.1074/JBC.M500768200
H.J.C. Berendsen, D. van der Spoel, R. van Drunen, GROMACS: A message-passing parallel molecular dynamics implementation Computer Physics Communications. ,vol. 91, pp. 43- 56 ,(1995) , 10.1016/0010-4655(95)00042-E