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Tapia-Arellano A, Cabrera P, Cortés-Adasme E, Riveros A, Hassan N, Kogan MJ. Tau- and α-synuclein-targeted gold nanoparticles: applications, opportunities, and future outlooks in the diagnosis and therapy of neurodegenerative diseases. J Nanobiotechnology 2024; 22:248. [PMID: 38741193 DOI: 10.1186/s12951-024-02526-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2024] [Accepted: 05/02/2024] [Indexed: 05/16/2024] Open
Abstract
The use of nanomaterials in medicine offers multiple opportunities to address neurodegenerative disorders such as Alzheimer's and Parkinson's disease. These diseases are a significant burden for society and the health system, affecting millions of people worldwide without sensitive and selective diagnostic methodologies or effective treatments to stop their progression. In this sense, the use of gold nanoparticles is a promising tool due to their unique properties at the nanometric level. They can be functionalized with specific molecules to selectively target pathological proteins such as Tau and α-synuclein for Alzheimer's and Parkinson's disease, respectively. Additionally, these proteins are used as diagnostic biomarkers, wherein gold nanoparticles play a key role in enhancing their signal, even at the low concentrations present in biological samples such as blood or cerebrospinal fluid, thus enabling an early and accurate diagnosis. On the other hand, gold nanoparticles act as drug delivery platforms, bringing therapeutic agents directly into the brain, improving treatment efficiency and precision, and reducing side effects in healthy tissues. However, despite the exciting potential of gold nanoparticles, it is crucial to address the challenges and issues associated with their use in the medical field before they can be widely applied in clinical settings. It is critical to ensure the safety and biocompatibility of these nanomaterials in the context of the central nervous system. Therefore, rigorous preclinical and clinical studies are needed to assess the efficacy and feasibility of these strategies in patients. Since there is scarce and sometimes contradictory literature about their use in this context, the main aim of this review is to discuss and analyze the current state-of-the-art of gold nanoparticles in relation to delivery, diagnosis, and therapy for Alzheimer's and Parkinson's disease, as well as recent research about their use in preclinical, clinical, and emerging research areas.
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Affiliation(s)
- Andreas Tapia-Arellano
- Instituto Universitario de Investigación y Desarrollo Tecnológico (IDT), Universidad Tecnológica Metropolitana, Santiago, Chile.
- Facultad de Cs. Qcas. y Farmacéuticas, Universidad de Chile, Santiago, Chile.
- Advanced Center for Chronic Diseases (ACCDis), Santiago, Chile.
- Millenium Nucleus in NanoBioPhysics, Valparaíso, Chile.
| | - Pablo Cabrera
- Facultad de Cs. Qcas. y Farmacéuticas, Universidad de Chile, Santiago, Chile
- Advanced Center for Chronic Diseases (ACCDis), Santiago, Chile
| | - Elizabeth Cortés-Adasme
- Facultad de Cs. Qcas. y Farmacéuticas, Universidad de Chile, Santiago, Chile
- Advanced Center for Chronic Diseases (ACCDis), Santiago, Chile
| | - Ana Riveros
- Facultad de Cs. Qcas. y Farmacéuticas, Universidad de Chile, Santiago, Chile
- Advanced Center for Chronic Diseases (ACCDis), Santiago, Chile
| | - Natalia Hassan
- Instituto Universitario de Investigación y Desarrollo Tecnológico (IDT), Universidad Tecnológica Metropolitana, Santiago, Chile.
- Advanced Center for Chronic Diseases (ACCDis), Santiago, Chile.
- Millenium Nucleus in NanoBioPhysics, Valparaíso, Chile.
| | - Marcelo J Kogan
- Facultad de Cs. Qcas. y Farmacéuticas, Universidad de Chile, Santiago, Chile.
- Advanced Center for Chronic Diseases (ACCDis), Santiago, Chile.
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2
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T A, Narayan R, Shenoy PA, Nayak UY. Computational modeling for the design and development of nano based drug delivery systems. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2022.120596] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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3
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Dutta S, Gagliardi M, Bellucci L, Agostini M, Corni S, Cecchini M, Brancolini G. Tuning gold-based surface functionalization for streptavidin detection: A combined simulative and experimental study. Front Mol Biosci 2022; 9:1006525. [DOI: 10.3389/fmolb.2022.1006525] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Accepted: 11/09/2022] [Indexed: 11/29/2022] Open
Abstract
A rationally designed gold-functionalized surface capable of capturing a target protein is presented using the biotin–streptavidin pair as a proof-of-concept. We carried out multiscale simulations to shed light on the binding mechanism of streptavidin on four differently biotinylated surfaces. Brownian Dynamics simulations were used to reveal the preferred initial orientation of streptavidin over the surfaces, whereas classical molecular dynamics was used to refine the binding poses and to investigate the fundamental forces involved in binding, and the binding kinetics. We assessed the binding events and the stability of the streptavidin attachment through a quartz crystal microbalance with dissipation monitoring (QCM-D). The sensing element comprises of biotinylated polyethylene glycol chains grafted on the sensor’s gold surface via thiol-Au chemistry. Finally, we compared the results from experiments and simulations. We found that the confined biotin moieties can specifically capture streptavidin from the liquid phase and provide guidelines on how to exploit the microscopic parameters obtained from simulations to guide the design of further biosensors with enhanced sensitivity.
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4
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Cantarutti C, Hunashal Y, La Rosa C, Condorelli M, Giorgetti S, Bellotti V, Fogolari F, Esposito G. The corona of protein-gold nanoparticle systems: the role of ionic strength. Phys Chem Chem Phys 2021; 24:1630-1637. [PMID: 34951613 DOI: 10.1039/d1cp04574a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
The nature of the nanoparticle-protein corona is emerging as a key aspect in determining the impact of nanomaterials on proteins and in general on the biological response. We previously demonstrated that citrate-stabilized gold nanoparticles (Cit-AuNPs) interact with β2-microglobulin (β2m) preserving the protein native structure. Moreover, Cit-AuNPs are able to hinder in vitro fibrillogenesis of a β2m pathologic variant, namely D76N, by reducing the oligomeric association of the protein in solution. Here, we clarify the characteristics of the interaction between β2m and Cit-AuNPs by means of different techniques, i.e. surface enhanced Raman spectroscopy, NMR and quartz crystal microbalance with dissipation monitoring. All the results obtained clearly show that by simply changing the ionic strength of the medium it is possible to switch from a labile and transient nature of the protein-NP adduct featuring the so-called soft corona, to a more "hard" interaction with a layer of proteins having a longer residence time on the NP surface. This confirms that the interaction between β2m and Cit-AuNPs is dominated by electrostatic forces which can be tuned by modifying the ionic strength.
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Affiliation(s)
| | - Yamanappa Hunashal
- DAME, Università di Udine, 33100 Udine, Italy.,Science Division, New York University Abu Dhabi, Abu Dhabi, UAE.
| | - Carmelo La Rosa
- Dip. Scienze Chimiche, Università di Catania, 95125 Catania, Italy
| | | | - Sofia Giorgetti
- Dipartimento di Medicina Molecolare, Università di Pavia, 27100 Pavia, Italy
| | - Vittorio Bellotti
- Dipartimento di Medicina Molecolare, Università di Pavia, 27100 Pavia, Italy.,Centre for Amyloidosis and Acute Phase Proteins, Division of Medicine, University College London, London NW3 2PF, UK
| | - Federico Fogolari
- DMIF, Università di Udine, 33100 Udine, Italy.,INBB, Viale Medaglie d'Oro 305, 00136 Roma, Italy
| | - Gennaro Esposito
- Science Division, New York University Abu Dhabi, Abu Dhabi, UAE. .,INBB, Viale Medaglie d'Oro 305, 00136 Roma, Italy
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5
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Dutta S, Corni S, Brancolini G. Molecular Dynamics Simulations of a Catalytic Multivalent Peptide-Nanoparticle Complex. Int J Mol Sci 2021; 22:3624. [PMID: 33807225 PMCID: PMC8037132 DOI: 10.3390/ijms22073624] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2021] [Revised: 03/22/2021] [Accepted: 03/25/2021] [Indexed: 11/16/2022] Open
Abstract
Molecular modeling of a supramolecular catalytic system is conducted resulting from the assembling between a small peptide and the surface of cationic self-assembled monolayers on gold nanoparticles, through a multiscale iterative approach including atomistic force field development, flexible docking with Brownian Dynamics and µs-long Molecular Dynamics simulations. Self-assembly is a prerequisite for the catalysis, since the catalytic peptides do not display any activity in the absence of the gold nanocluster. Atomistic simulations reveal details of the association dynamics as regulated by defined conformational changes of the peptide due to peptide length and sequence. Our results show the importance of a rational design of the peptide to enhance the catalytic activity of peptide-nanoparticle conjugates and present a viable computational approach toward the design of enzyme mimics having a complex structure-function relationship, for technological and nanomedical applications.
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Affiliation(s)
- Sutapa Dutta
- Dipartimento di Scienze Chimiche, Università di Padova, 35131 Padova, Italy;
- Istituto Nanoscienze, CNR-NANO S3, via G. Campi 213/A, 41125 Modena, Italy
| | - Stefano Corni
- Dipartimento di Scienze Chimiche, Università di Padova, 35131 Padova, Italy;
- Istituto Nanoscienze, CNR-NANO S3, via G. Campi 213/A, 41125 Modena, Italy
| | - Giorgia Brancolini
- Istituto Nanoscienze, CNR-NANO S3, via G. Campi 213/A, 41125 Modena, Italy
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6
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Dutta S, Bellucci L, Agostini M, Gagliardi M, Corni S, Cecchini M, Brancolini G. Atomistic simulations of gold surface functionalization for nanoscale biosensors applications. NANOTECHNOLOGY 2021; 32:095702. [PMID: 33137790 DOI: 10.1088/1361-6528/abc6dc] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
A wide class of biosensors can be built via functionalization of gold surface with proper bio conjugation element capable of interacting with the analyte in solution, and the detection can be performed either optically, mechanically or electrically. Any change in physico-chemical environment or any slight variation in mass localization near the surface of the sensor can cause differences in nature of the transduction mechanism. The optimization of such sensors may require multiple experiments to determine suitable experimental conditions for the immobilization and detection of the analyte. Here, we employ molecular modeling techniques to assist the optimization of a gold-surface biosensor. The gold surface of a quartz-crystal-microbalance sensor is functionalized using polymeric chains of poly(ethylene glycol) (PEG) of 2 KDa molecular weight, which is an inert long chain amphiphilic molecule, supporting biotin molecules (bPEG) as the ligand molecules for streptavidin analyte. The PEG linkers are immobilized onto the gold surface through sulphur chemistry. Four gold surfaces with different PEG linker density and different biotinylation ratio between bPEG and PEG, are investigated by means of state-of-the art atomistic simulations and compared with available experimental data. Results suggest that the amount of biotin molecules accessible for the binding with the protein increases upon increasing the linkers density. At the high density a 1:1 ratio of bPEG/PEG can further improve the accessibility of the biotin ligand due to a strong repulsion between linker chains and different degree of hydrophobicity between bPEG and PEG linkers. The study provides a computaional protocol to model sensors at the level of single molecular interactions, and for optimizing the physical properties of surface conjugated ligand which is crucial to enhance output of the sensor.
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Affiliation(s)
- Sutapa Dutta
- Dipartimento di Scienze Chimiche, Università di Padova, I-35131 Padova, Italy
- Istituto Nanoscienze-CNR-NANO, Center S3, via G. Campi 213/A, I-41125 Modena, Italy
| | - Luca Bellucci
- NEST, Scuola Normale Superiore and Istituto Nanoscienze-CNR, Piazza San Silvestro 12, I-56127 Pisa, Italy
| | - Matteo Agostini
- NEST, Scuola Normale Superiore and Istituto Nanoscienze-CNR, Piazza San Silvestro 12, I-56127 Pisa, Italy
| | - Mariacristina Gagliardi
- NEST, Scuola Normale Superiore and Istituto Nanoscienze-CNR, Piazza San Silvestro 12, I-56127 Pisa, Italy
| | - Stefano Corni
- Dipartimento di Scienze Chimiche, Università di Padova, I-35131 Padova, Italy
- Istituto Nanoscienze-CNR-NANO, Center S3, via G. Campi 213/A, I-41125 Modena, Italy
| | - Marco Cecchini
- NEST, Scuola Normale Superiore and Istituto Nanoscienze-CNR, Piazza San Silvestro 12, I-56127 Pisa, Italy
| | - Giorgia Brancolini
- Istituto Nanoscienze-CNR-NANO, Center S3, via G. Campi 213/A, I-41125 Modena, Italy
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7
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Maschio MC, Fregoni J, Molteni C, Corni S. Proline isomerization effects in the amyloidogenic protein β2-microglobulin. Phys Chem Chem Phys 2021; 23:356-367. [DOI: 10.1039/d0cp04780e] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The protein β2-microglobulin can aggregate in insoluble amyloid fibrils. By relying on extensive sampling simulations, we study the Pro32 isomerization as a possible triggering factor leading to structural modifications in β2-m.
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Affiliation(s)
| | - Jacopo Fregoni
- CNR-Nano S3
- Modena
- Italy
- Department of Chemical Sciences
- University of Padova
| | - Carla Molteni
- Department of Physics
- King's College London
- Strand
- London WC2R 2LS
- UK
| | - Stefano Corni
- CNR-Nano S3
- Modena
- Italy
- Department of Chemical Sciences
- University of Padova
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8
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Insights into a Protein-Nanoparticle System by Paramagnetic Perturbation NMR Spectroscopy. MOLECULES (BASEL, SWITZERLAND) 2020; 25:molecules25215187. [PMID: 33171781 PMCID: PMC7664681 DOI: 10.3390/molecules25215187] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/06/2020] [Revised: 09/12/2020] [Accepted: 10/22/2020] [Indexed: 11/18/2022]
Abstract
Background: The interaction between proteins and nanoparticles is a very relevant subject because of the potential applications in medicine and material science in general. Further interest derives from the amyloidogenic character of the considered protein, β2-microglobulin (β2m), which may be regarded as a paradigmatic system for possible therapeutic strategies. Previous evidence showed in fact that gold nanoparticles (AuNPs) are able to inhibit β2m fibril formation in vitro. Methods: NMR (Nuclear Magnetic Resonance) and ESR (Electron Spin Resonance) spectroscopy are employed to characterize the paramagnetic perturbation of the extrinsic nitroxide probe Tempol on β2m in the absence and presence of AuNPs to determine the surface accessibility properties and the occurrence of chemical or conformational exchange, based on measurements conducted under magnetization equilibrium and non-equilibrium conditions. Results: The nitroxide perturbation analysis successfully identifies the protein regions where protein-protein or protein-AuNPs interactions hinder accessibility or/and establish exchange contacts. These information give interesting clues to recognize the fibrillation interface of β2m and hypothesize a mechanism for AuNPs fibrillogenesis inhibition. Conclusions: The presented approach can be advantageously applied to the characterization of the interface in protein-protein and protein-nanoparticles interactions.
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9
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Loureiro RJS, Faísca PFN. The Early Phase of β2-Microglobulin Aggregation: Perspectives From Molecular Simulations. Front Mol Biosci 2020; 7:578433. [PMID: 33134317 PMCID: PMC7550760 DOI: 10.3389/fmolb.2020.578433] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2020] [Accepted: 09/08/2020] [Indexed: 11/24/2022] Open
Abstract
Protein β2-microglobulin is the causing agent of two amyloidosis, dialysis related amyloidosis (DRA), affecting the bones and cartilages of individuals with chronic renal failure undergoing long-term hemodialysis, and a systemic amyloidosis, found in one French family, which impairs visceral organs. The protein’s small size and its biomedical significance attracted the attention of theoretical scientists, and there are now several studies addressing its aggregation mechanism in the context of molecular simulations. Here, we review the early phase of β2-microglobulin aggregation, by focusing on the identification and structural characterization of monomers with the ability to trigger aggregation, and initial small oligomers (dimers, tetramers, hexamers etc.) formed in the so-called nucleation phase. We focus our analysis on results from molecular simulations and integrate our views with those coming from in vitro experiments to provide a broader perspective of this interesting field of research. We also outline directions for future computer simulation studies.
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Affiliation(s)
- Rui J S Loureiro
- Faculty of Sciences, BioISI - Biosystems & Integrative Sciences Institute, University of Lisboa, Lisbon, Portugal
| | - Patrícia F N Faísca
- Faculty of Sciences, BioISI - Biosystems & Integrative Sciences Institute, University of Lisboa, Lisbon, Portugal.,Department of Physics, Faculty of Sciences, University of Lisboa, Lisbon, Portugal
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10
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Loosening of Side-Chain Packing Associated with Perturbations in Peripheral Dynamics Induced by the D76N Mutation of β 2-Microglobulin Revealed by Pressure-NMR and Molecular Dynamic Simulations. Biomolecules 2019; 9:biom9090491. [PMID: 31527472 PMCID: PMC6769805 DOI: 10.3390/biom9090491] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2019] [Revised: 09/09/2019] [Accepted: 09/11/2019] [Indexed: 01/24/2023] Open
Abstract
β2-Microglobulin (β2m) is the causative protein of dialysis-related amyloidosis, and its D76N variant is less stable and more prone to aggregation. Since their crystal structures are indistinguishable from each other, enhanced amyloidogenicity induced by the mutation may be attributed to changes in the structural dynamics of the molecule. We examined pressure and mutation effects on the β2m molecule by NMR and MD simulations, and found that the mutation induced the loosening of the inter-sheet packing of β2m, which is relevant to destabilization and subsequent amyloidogenicity. On the other hand, this loosening was coupled with perturbed dynamics at some peripheral regions. The key result for this conclusion was that both the mutation and pressure induced similar reductions in the mobility of these residues, suggesting that there is a common mechanism underlying the suppression of inherent fluctuations in the β2m molecule. Analyses of data obtained under high pressure conditions suggested that the network of dynamically correlated residues included not only the mutation site, but also distal residues, such as those of the C- and D-strands. Reductions in these local dynamics correlated with the loosening of inter-sheet packing.
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11
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Brancolini G, Lopez H, Corni S, Tozzini V. Low-Resolution Models for the Interaction Dynamics of Coated Gold Nanoparticles with β2-microglobulin. Int J Mol Sci 2019; 20:ijms20163866. [PMID: 31398866 PMCID: PMC6719018 DOI: 10.3390/ijms20163866] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2019] [Revised: 08/01/2019] [Accepted: 08/03/2019] [Indexed: 12/21/2022] Open
Abstract
A large number of low-resolution models have been proposed in the last decades to reduce the computational cost of molecular dynamics simulations for bio-nano systems, such as those involving the interactions of proteins with functionalized nanoparticles (NPs). For the proteins, “minimalist” models at the one-bead-per residue (Cα-based) level and with implicit solvent are well established. For the gold NPs, widely explored for biotechnological applications, mesoscale (MS) models treating the NP core with a single spheroidal object are commonly proposed. In this representation, the surface details (coating, roughness, etc.) are lost. These, however, and the specificity of the functionalization, have been shown to have fundamental roles for the interaction with proteins. We presented a mixed-resolution coarse-grained (CG) model for gold NPs in which the surface chemistry is reintroduced as superficial smaller beads. We compared molecular dynamics simulations of the amyloid β2-microglobulin represented at the minimalist level interacting with NPs represented with this model or at the MS level. Our finding highlights the importance of describing the surface of the NP at a finer level as the chemical-physical properties of the surface of the NP are crucial to correctly understand the protein-nanoparticle association.
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Affiliation(s)
- Giorgia Brancolini
- Istituto Nanoscienze, CNR-NANO S3, via G. Campi 213/A, 41125 Modena, Italy.
| | - Hender Lopez
- School of Physics and Optometric & Clinical Sciences, Technological University Dublin, Kevin Street, Dublin D08 NF82, Ireland
| | - Stefano Corni
- Istituto Nanoscienze, CNR-NANO S3, via G. Campi 213/A, 41125 Modena, Italy
- Dipartimento di Scienze Chimiche, Università di Padova, 35131 Padova, Italy
| | - Valentina Tozzini
- Istituto Nanoscienze-National Research Council (CNR) and National Enterprise for nanoScience and nanoTechnology (NEST) Scuola Normale Superiore, Piazza San Silvestro 12, 56127 Pisa, Italy.
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12
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Mahalakshmi M, Kumar P. Phloroglucinol-conjugated gold nanoparticles targeting mitochondrial membrane potential of human cervical (HeLa) cancer cell lines. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2019; 219:450-456. [PMID: 31063960 DOI: 10.1016/j.saa.2019.04.060] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/24/2018] [Revised: 04/16/2019] [Accepted: 04/22/2019] [Indexed: 06/09/2023]
Abstract
In recent, targeting mitochondria in cancer is considered to be a challenging task. This report illustrates preliminary findings from an investigation of the conjugation of gold nanoparticles with a bioactive natural compound, phloroglucinol targeting mitochondrial transmembrane potential of HeLa cancer cells. We systematically investigated the formation of gold-nano conjugates over precisely controlled reaction conditions. Their sharp features enable superior surface plasmon resonance, morphology, surface charge, and stability. We show that gold-nano conjugates scavenging free radicals and persuade cell death in HeLa cancer cells. We also show that gold-nano conjugates induce apoptosis by promoting mitochondrial transmembrane permeation via fluorescent microscopic studies. This work gives new insights into bridging metabolomics and nanotechnology into developing novel lead therapeutic molecules.
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Affiliation(s)
- Mahalingam Mahalakshmi
- Food Chemistry and Molecular Cancer Biology Lab, Department of Animal Health and Management, Science Campus, Alagappa University, Karaikudi 630 003, India
| | - Ponnuchamy Kumar
- Food Chemistry and Molecular Cancer Biology Lab, Department of Animal Health and Management, Science Campus, Alagappa University, Karaikudi 630 003, India.
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13
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Brancolini G, Tozzini V. Building Minimalist Models for Functionalized Metal Nanoparticles. Front Mol Biosci 2019; 6:50. [PMID: 31312634 PMCID: PMC6614485 DOI: 10.3389/fmolb.2019.00050] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2019] [Accepted: 06/17/2019] [Indexed: 01/11/2023] Open
Affiliation(s)
| | - Valentina Tozzini
- Istituto Nanoscienze-CNR and NEST-Scuola Normale Superiore, Pisa, Italy
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14
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Brancolini G, Bellucci L, Maschio MC, Di Felice R, Corni S. The interaction of peptides and proteins with nanostructures surfaces: a challenge for nanoscience. Curr Opin Colloid Interface Sci 2019. [DOI: 10.1016/j.cocis.2018.12.003] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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15
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Dongmo Foumthuim CJ, Corazza A, Esposito G, Fogolari F. Molecular dynamics simulations of β2-microglobulin interaction with hydrophobic surfaces. MOLECULAR BIOSYSTEMS 2018; 13:2625-2637. [PMID: 29051937 DOI: 10.1039/c7mb00464h] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
Hydrophobic surfaces are known to adsorb and unfold proteins, a process that has been studied only for a few proteins. Here we address the interaction of β2-microglobulin, a paradigmatic protein for the study of amyloidogenesis, with hydrophobic surfaces. A system with 27 copies of the protein surrounded by a model cubic hydrophobic box is studied by implicit solvent molecular dynamics simulations. Most proteins adsorb on the walls of the box without major distortions in local geometry, whereas free molecules maintain proper structures and fluctuations as observed in explicit solvent molecular dynamics simulations. The major conclusions from the simulations are as follows: (i) the adopted implicit solvent model is adequate to describe protein dynamics and thermodynamics; (ii) adsorption occurs readily and is irreversible on the simulated timescale; (iii) the regions most involved in molecular encounters and stable interactions with the walls are the same as those that are important in protein-protein and protein-nanoparticle interactions; (iv) unfolding following adsorption occurs at regions found to be flexible by both experiments and simulations; (v) thermodynamic analysis suggests a very large contribution from van der Waals interactions, whereas unfavorable electrostatic interactions are not found to contribute much to adsorption energy. Surfaces with different degrees of hydrophobicity may occur in vivo. Our simulations show that adsorption is a fast and irreversible process which is accompanied by partial unfolding. The results and the thermodynamic analysis presented here are consistent with and rationalize previous experimental work.
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16
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Martínez-Esaín J, Ros J, Faraudo J, Ricart S, Yáñez R. Tailoring the Synthesis of LnF 3 (Ln = La-Lu and Y) Nanocrystals via Mechanistic Study of the Coprecipitation Method. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2018; 34:6443-6453. [PMID: 29566494 DOI: 10.1021/acs.langmuir.7b03454] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Here, 15 LnF3 nanocrystals are synthesized using coprecipitation method with citrate stabilization to allow the fast, easy, and reproducible synthesis of several nanoscaled structures in water. General trends related to the behavior of LnF3 nanocrystals are highlighted due to their broad range of application in several fields (e.g., medical applications). The same nature for all Ln3+ cations is expected due to the internal role of f orbitals. However, we found that the use of different lanthanide elements is crucial in the final size, shape, assembly, and crystalline structure. In addition, the decrease of the cation size of the lanthanide series changes the behavior of these compounds, resulting in hexagonal, orthorhombic, and cubic crystalline structures. In addition, we are able to tune the cubic crystalline phase to pure orthorhombic by modifying the pH of the system using HBF4 instead of tetramethylammonium citrate. Via 11B NMR, we demonstrated the mechanism of HBF4 as fluorinating agent if an additional source of F- is not added during the synthesis. 1H NMR and IR techniques were performed to unravel the picture of the surface chemistry of the two representative metal cations (Y and La). Finally, HRTEM and SAED were performed to uncover the shape of the obtained nanocrystals and the preferential orientation of the assembled particles, giving crucial information on the involved mechanisms. This study reveals not only the dependence of the crystalline structure on the used metal and pH but also ability to achieve LnF3 assembled particles depending on the final shape and temperature.
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Affiliation(s)
- Jordi Martínez-Esaín
- Departament de Química , Universitat Autònoma de Barcelona , 08193 Bellaterra , Catalonia , Spain
- Institut de Ciència de Materials de Barcelona (ICMAB-CSIC) , 08193 Bellaterra , Catalonia , Spain
| | - Josep Ros
- Departament de Química , Universitat Autònoma de Barcelona , 08193 Bellaterra , Catalonia , Spain
| | - Jordi Faraudo
- Institut de Ciència de Materials de Barcelona (ICMAB-CSIC) , 08193 Bellaterra , Catalonia , Spain
| | - Susagna Ricart
- Institut de Ciència de Materials de Barcelona (ICMAB-CSIC) , 08193 Bellaterra , Catalonia , Spain
| | - Ramón Yáñez
- Departament de Química , Universitat Autònoma de Barcelona , 08193 Bellaterra , Catalonia , Spain
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17
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Brancolini G, Maschio MC, Cantarutti C, Corazza A, Fogolari F, Bellotti V, Corni S, Esposito G. Citrate stabilized gold nanoparticles interfere with amyloid fibril formation: D76N and ΔN6 β2-microglobulin variants. NANOSCALE 2018; 10:4793-4806. [PMID: 29469914 DOI: 10.1039/c7nr06808e] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Protein aggregation including the formation of dimers and multimers in solution, underlies an array of human diseases such as systemic amyloidosis which is a fatal disease caused by misfolding of native globular proteins damaging the structure and function of affected organs. Different kind of interactors can interfere with the formation of protein dimers and multimers in solution. A very special class of interactors are nanoparticles thanks to the extremely efficient extension of their interaction surface. In particular citrate-coated gold nanoparticles (cit-AuNPs) were recently investigated with amyloidogenic protein β2-microglobulin (β2m). Here we present the computational studies on two challenging models known for their enhanced amyloidogenic propensity, namely ΔN6 and D76N β2m naturally occurring variants, and disclose the role of cit-AuNPs on their fibrillogenesis. The proposed interaction mechanism lies in the interference of the cit-AuNPs with the protein dimers at the early stages of aggregation, that induces dimer disassembling. As a consequence, natural fibril formation can be inhibited. Relying on the comparison between atomistic simulations at multiple levels (enhanced sampling molecular dynamics and Brownian dynamics) and protein structural characterisation by NMR, we demonstrate that the cit-AuNPs interactors are able to inhibit protein dimer assembling. As a consequence, the natural fibril formation is also inhibited, as found in experiment.
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Affiliation(s)
- Giorgia Brancolini
- Center S3, CNR Institute Nanoscience, Via Campi 213/A, 41125 Modena, Italy.
| | | | - Cristina Cantarutti
- Dipartimento di Scienza Mediche e Biologiche (DSMB), University of Udine, Piazzale Kolbe 3, 33100 Udine, Italy
| | - Alessandra Corazza
- Dipartimento di Scienza Mediche e Biologiche (DSMB), University of Udine, Piazzale Kolbe 3, 33100 Udine, Italy and Istituto Nazionale Biostrutture e Biosistemi, Viale medaglie d'Oro, 305 - 00136 Roma, Italy
| | - Federico Fogolari
- Dipartimento di Scienza Mediche e Biologiche (DSMB), University of Udine, Piazzale Kolbe 3, 33100 Udine, Italy and Istituto Nazionale Biostrutture e Biosistemi, Viale medaglie d'Oro, 305 - 00136 Roma, Italy
| | - Vittorio Bellotti
- Dipartimento di Medicina Molecolare, Universita' di Pavia, Via Taramelli 3, 27100 Pavia, Italy and Istituto Nazionale Biostrutture e Biosistemi, Viale medaglie d'Oro, 305 - 00136 Roma, Italy and Division of Medicine, University College of London, London NW3 2PF, UK
| | - Stefano Corni
- Department of Chemical Science, University of Padova, via VIII Febbraio 2, 35122 Padova and Center S3, CNR Institute Nanoscience, Via Campi 213/A, 41125 Modena, Italy
| | - Gennaro Esposito
- Center S3, CNR Institute Nanoscience, Via Campi 213/A, 41125 Modena, Italy. and Istituto Nazionale Biostrutture e Biosistemi, Viale medaglie d'Oro, 305 - 00136 Roma, Italy and Science and Math Division, New York University at Abu Dhabi, Abu Dhabi, United Arab Emirates.
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18
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Martínez-Esaín J, Faraudo J, Puig T, Obradors X, Ros J, Ricart S, Yáñez R. Tunable Self-Assembly of YF 3 Nanoparticles by Citrate-Mediated Ionic Bridges. J Am Chem Soc 2018; 140:2127-2134. [PMID: 29308645 PMCID: PMC6090504 DOI: 10.1021/jacs.7b09821] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2017] [Indexed: 12/12/2022]
Abstract
Ligand-to-surface interactions are critical factors in surface and interface chemistry to control the mechanisms governing nanostructured colloidal suspensions. In particular, molecules containing carboxylate moieties (such as citrate anions) have been extensively investigated to stabilize metal, metal oxide, and metal fluoride nanoparticles. Using YF3 nanoparticles as a model system, we show here the self-assembly of citrate-stabilized nanostructures (supraparticles) with a size tunable by temperature. Results from several experimental techniques and molecular dynamics simulations show that the self-assembly of nanoparticles into supraparticles is due to ionic bridges between different nanoparticles. These interactions were caused by cations (e.g., ammonium) strongly adsorbed onto the nanoparticle surface that also interact strongly with nonbonded citrate anions, creating ionic bridges in solution between nanoparticles. Experimentally, we observe self-assembly of nanoparticles into supraparticles at 25 and 100 °C. Interestingly, at high temperatures (100 °C), this citrate-bridge self-assembly mechanism is more efficient, giving rise to larger supraparticles. At low temperatures (5 °C), this mechanism is not observed, and nanoparticles remain stable. Molecular dynamics simulations show that the free energy of a single citrate bridge between nanoparticles in solution is much larger than the thermal energy and in fact is much larger than typical adsorption free energies of ions on colloids. Summarizing our experiments and simulations, we identify as key aspects of the self-assembly mechanism the requirement of NPs with a surface able to adsorb anions and cations and the presence of multidentate ions in solution. This indicates that this new ion-mediated self-assembly mechanism is not specific of YF3 and citrate anions, as supported by preliminary experimental results in other systems.
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Affiliation(s)
- Jordi Martínez-Esaín
- Departament
de Química, Universitat Autònoma
de Barcelona, 08193 Bellaterra, Spain
- Institut
de Ciència de Materials de Barcelona (ICMAB-CSIC), 08193 Bellaterra, Spain
| | - Jordi Faraudo
- Institut
de Ciència de Materials de Barcelona (ICMAB-CSIC), 08193 Bellaterra, Spain
| | - Teresa Puig
- Institut
de Ciència de Materials de Barcelona (ICMAB-CSIC), 08193 Bellaterra, Spain
| | - Xavier Obradors
- Institut
de Ciència de Materials de Barcelona (ICMAB-CSIC), 08193 Bellaterra, Spain
| | - Josep Ros
- Departament
de Química, Universitat Autònoma
de Barcelona, 08193 Bellaterra, Spain
| | - Susagna Ricart
- Institut
de Ciència de Materials de Barcelona (ICMAB-CSIC), 08193 Bellaterra, Spain
| | - Ramón Yáñez
- Departament
de Química, Universitat Autònoma
de Barcelona, 08193 Bellaterra, Spain
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19
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Cantarutti C, Bertoncin P, Posocco P, Hunashal Y, Giorgetti S, Bellotti V, Fogolari F, Esposito G. The interaction of β2-microglobulin with gold nanoparticles: impact of coating, charge and size. J Mater Chem B 2018; 6:5964-5974. [PMID: 32254716 DOI: 10.1039/c8tb01129j] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Gold nanoparticles (AuNPs) have been proved to be ideal scaffolds to build nanodevices whose performance can be tuned by changing their coating.
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Affiliation(s)
| | - Paolo Bertoncin
- Dipartimento di Scienze della Vita
- Università di Trieste
- 34128 Trieste
- Italy
| | - Paola Posocco
- Dipartimento di Ingegneria ed Architettura
- Università di Trieste
- 34127 Trieste
- Italy
| | | | - Sofia Giorgetti
- Dipartimento di Medicina Molecolare
- Università di Pavia
- 27100 Pavia
- Italy
| | - Vittorio Bellotti
- Dipartimento di Medicina Molecolare
- Università di Pavia
- 27100 Pavia
- Italy
- Division of Medicine
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20
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Cantarutti C, Raj G, Fogolari F, Giorgetti S, Corazza A, Bellotti V, Naumov P, Esposito G. Interference of citrate-stabilized gold nanoparticles with β2-microglobulin oligomeric association. Chem Commun (Camb) 2018; 54:5422-5425. [DOI: 10.1039/c8cc01053f] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Citrate-coated gold nanoparticles interfere with the association equilibria of β2-microglobulin and thus inhibit the early events of fibrillogenesis.
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Affiliation(s)
| | - Gijo Raj
- New York University Abu Dhabi
- Abu Dhabi
- United Arab Emirates
| | | | - Sofia Giorgetti
- Dipartimento di Medicina Molecolare
- Università di Pavia
- 27100 Pavia
- Italy
| | | | - Vittorio Bellotti
- Dipartimento di Medicina Molecolare
- Università di Pavia
- 27100 Pavia
- Italy
- Division of Medicine
| | - Panče Naumov
- New York University Abu Dhabi
- Abu Dhabi
- United Arab Emirates
| | - Gennaro Esposito
- New York University Abu Dhabi
- Abu Dhabi
- United Arab Emirates
- INBB
- 00136 Roma
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21
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Short-Chain Alkanethiol Coating for Small-Size Gold Nanoparticles Supporting Protein Stability. MAGNETOCHEMISTRY 2017. [DOI: 10.3390/magnetochemistry3040040] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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22
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Ahmed R, VanSchouwen B, Jafari N, Ni X, Ortega J, Melacini G. Molecular Mechanism for the (-)-Epigallocatechin Gallate-Induced Toxic to Nontoxic Remodeling of Aβ Oligomers. J Am Chem Soc 2017; 139:13720-13734. [PMID: 28841302 DOI: 10.1021/jacs.7b05012] [Citation(s) in RCA: 78] [Impact Index Per Article: 11.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Abstract
(-)-Epigallocatechin gallate (EGCG) effectively reduces the cytotoxicity of the Alzheimer's disease β-amyloid peptide (Aβ) by remodeling seeding-competent Aβ oligomers into off-pathway seeding-incompetent Aβ assemblies. However, the mechanism of EGCG-induced remodeling is not fully understood. Here we combine 15N and 1H dark-state exchange saturation transfer (DEST), relaxation, and chemical shift projection NMR analyses with fluorescence, dynamic light scattering, and electron microscopy to elucidate how EGCG remodels Aβ oligomers. We show that the remodeling adheres to a Hill-Scatchard model whereby the Aβ(1-40) self-association occurs cooperatively and generates Aβ(1-40) oligomers with multiple independent binding sites for EGCG with a Kd ∼10-fold lower than that for the Aβ(1-40) monomers. Upon binding to EGCG, the Aβ(1-40) oligomers become less solvent exposed, and the β-regions, which are involved in direct monomer-protofibril contacts in the absence of EGCG, undergo a direct-to-tethered contact shift. This switch toward less engaged monomer-protofibril contacts explains the seeding incompetency observed upon EGCG remodeling and suggests that EGCG interferes with secondary nucleation events known to generate toxic Aβ assemblies. Unexpectedly, the N-terminal residues experience an opposite EGCG-induced shift from tethered to direct contacts, explaining why EGCG remodeling occurs without release of Aβ(1-40) monomers. We also show that upon binding Aβ(1-40) oligomers the relative positions of the EGCG B and D rings change with respect to that of ring A. These distinct structural changes occurring in both Aβ(1-40) oligomers and EGCG during remodeling offer a foundation for understanding the molecular mechanism of EGCG as a neurotoxicity inhibitor. Furthermore, the results reported here illustrate the effectiveness of DEST-based NMR approaches in investigating the mechanism of low-molecular-weight amyloid inhibitors.
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Affiliation(s)
- Rashik Ahmed
- Department of Biochemistry and Biomedical Sciences and ‡Department of Chemistry and Chemical Biology, McMaster University , 1280 Main Street West, Hamilton, Ontario L8S 4M1, Canada
| | - Bryan VanSchouwen
- Department of Biochemistry and Biomedical Sciences and ‡Department of Chemistry and Chemical Biology, McMaster University , 1280 Main Street West, Hamilton, Ontario L8S 4M1, Canada
| | - Naeimeh Jafari
- Department of Biochemistry and Biomedical Sciences and ‡Department of Chemistry and Chemical Biology, McMaster University , 1280 Main Street West, Hamilton, Ontario L8S 4M1, Canada
| | - Xiaodan Ni
- Department of Biochemistry and Biomedical Sciences and ‡Department of Chemistry and Chemical Biology, McMaster University , 1280 Main Street West, Hamilton, Ontario L8S 4M1, Canada
| | - Joaquin Ortega
- Department of Biochemistry and Biomedical Sciences and ‡Department of Chemistry and Chemical Biology, McMaster University , 1280 Main Street West, Hamilton, Ontario L8S 4M1, Canada
| | - Giuseppe Melacini
- Department of Biochemistry and Biomedical Sciences and ‡Department of Chemistry and Chemical Biology, McMaster University , 1280 Main Street West, Hamilton, Ontario L8S 4M1, Canada
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