Binding of Zn(II) to Tropomyosin Receptor Kinase A in Complex with Its Cognate Nerve Growth Factor: Insights from Molecular Simulation and in Vitro Essays(62 visite) Pietropaolo A, Magri A, Greco V, Losasso V, La Mendola D, Sciuto S, Carloni P, Rizzarelli E
Impact factor: 4.348, Impact factor a 5 anni: 4.51
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Parole chiave: Metadynamics Simulation, Metal Complexes, Metal Ions, Neurotrophin, Peptide,
*** IBB - CNR *** Dipartimento di Scienze della Salute, Universita di Catanzaro , Viale Europa, 88100 Catanzaro, Italy., IBB-CNR , UOS Catania, via Paolo Gaifami 18, 95126 Catania, Italy., Dipartimento di Scienze Chimiche, Universita degli Studi di Catania , Viale Andrea Doria 6, 95125 Catania, Italy., Institute for Computational Biomedicine (IAS-5/INM-9/INM-9) Forschungszentrum Julich , 52425 Julich, Germany., Department of Physics, RWTH Aachen University , 52056 Aachen, Germany., Department of Pharmacy, University of Pisa , Via Bonanno Pisano 6, 56126 Pisa, Italy.,
The binding of the human nerve growth factor (NGF) protein to tropomyosin receptor kinase A (TrkA) is associated with Alzhemeir's development. Owing to the large presence of zinc(II) ions in the synaptic compartments, the zinc ions might be bound to the complex in vivo. Here, we have identified a putative zinc binding site using a combination of computations and experiments. First, we have predicted structural features of the NGF/TrkA complex in an aqueous solution by molecular simulation. Metadynamics free energy calculations suggest that these are very similar to those in the X-ray structure. Here, the "crab" structure of the NGF shape binds tightly to two TrkA "pincers". Transient conformations of the complex include both more extended and more closed conformations. Interestingly, the latter features facial histidines (His60 and His61) among the N-terminal D1-D3 domains, each of which is a potential binding region for biometals. This suggests the presence of a four-His Zn binding site connecting the two chains. To address this issue, we investigated the binding of a D1-D3 domains' peptide mimic by stability constant and nuclear magnetic resonance measurements, complemented by density functional theory-based calculations. Taken together, these establish unambiguously a four-His coordination of the metal ion in the model systems, supporting the presence of our postulated binding site in the NGF/TrkA complex.
43 Records (42 escludendo Abstract e Conferenze). Impact factor totale: 209.384 (207.302 escludendo Abstract e Conferenze). Impact factor a 5 anni totale: 212.042 (209.796 escludendo Abstract e Conferenze).