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Ayyari N, Vaezi Z, Ashin ZF, Karimi E, Mohsenzadeh Haji F, Nikkhah M, Naderi-Manesh H. Porphysome Engineered With Specific Protein Binding Sites as a Multimodal Theranostic Nanocarrier for Targeted Protein Delivery. Chem Biodivers 2024:e202400348. [PMID: 38616166 DOI: 10.1002/cbdv.202400348] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2024] [Revised: 03/26/2024] [Accepted: 04/05/2024] [Indexed: 04/16/2024]
Abstract
The immobilization of proteins on the surface of carriers is challenging due to the loss of protein structure and function in this process. Here, we report the development of the protein immobilization on the surface of the metallated-porphyrin complex in the porphysome nanocarrier. The conjugated Ni-porphyrin to fatty acid (as a tail) has been synthesized and independently placed at the depth of the bilayer center of Dipalmitoylphosphatidylcholine (DPPC) in which the Ni-porphyrin was at the polar region of the membrane and is thus superficial. This porphysome (DPPC: Ni-porphyrin, 4 : 1 mole ratio) was formed by supramolecular self-assembly with a diameter of 173±7 nm and zeta potential -8.5±3.4 mv, which exhibited no significant toxicity at the experimental concentrations and acceptable cellular uptake on MCF-7 cells. The physicochemical properties and specific protein binding sites of the firefly luciferase as a model protein into the porphysome (1 : 2 mole ratio) show the conjugation efficiency about 80 % and the conformation of protein was completely maintained. Furthermore, bioluminescence assay and SDS-PAGE confirmed the preservation of protein function. The stabilized platform of porphyrin-lipid structure can potentially improve the efficacy of protein functionality for a particular display, shifting porphysomes from a simple carrier to a therapeutic agent.
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Affiliation(s)
- Niloofar Ayyari
- Department of Nanobiotechnology, Faculty of Biological Science, Tarbiat Modares University, PO Box, 14115-154, Tehran, Iran
| | - Zahra Vaezi
- Department of Bioactive compounds, Faculty of Interdisciplinary Science and Technologies, Tarbiat Modares University, Postal codes, 14115-154, Tehran, Iran
| | - Zeinab Fotouhi Ashin
- Department of Nanobiotechnology, Faculty of Biological Science, Tarbiat Modares University, PO Box, 14115-154, Tehran, Iran
| | - Elham Karimi
- Department of Nanobiotechnology, Faculty of Biological Science, Tarbiat Modares University, PO Box, 14115-154, Tehran, Iran
| | - Fatemeh Mohsenzadeh Haji
- Department of Organic chemistry, Faculty of Chemistry, Tarbiat Modares University, Postal codes, 14115-154, Tehran, Iran
| | - Maryam Nikkhah
- Department of Nanobiotechnology, Faculty of Biological Science, Tarbiat Modares University, PO Box, 14115-154, Tehran, Iran
| | - Hossein Naderi-Manesh
- Department of Nanobiotechnology, Faculty of Biological Science, Tarbiat Modares University, PO Box, 14115-154, Tehran, Iran
- Department of Bioactive compounds, Faculty of Interdisciplinary Science and Technologies, Tarbiat Modares University, Postal codes, 14115-154, Tehran, Iran
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2
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Frigerio G, Donadoni E, Siani P, Vertemara J, Motta S, Bonati L, Gioia LD, Valentin CD. Mechanism of RGD-conjugated nanodevice binding to its target protein integrin α Vβ 3 by atomistic molecular dynamics and machine learning. NANOSCALE 2024; 16:4063-4081. [PMID: 38334981 DOI: 10.1039/d3nr05123d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/10/2024]
Abstract
Active targeting strategies have been proposed to enhance the selective uptake of nanoparticles (NPs) by diseased cells, and recent experimental findings have proven the effectiveness of this approach. However, no mechanistic studies have yet revealed the atomistic details of the interactions between ligand-activated NPs and integrins. As a case study, here we investigate, by means of advanced molecular dynamics simulations (MD) and machine learning methods (namely equilibrium MD, binding free energy calculations and training of self-organized maps), the interaction of a cyclic-RGD-conjugated PEGylated TiO2 NP (the nanodevice) with the extracellular segment of integrin αVβ3 (the target), the latter experimentally well-known to be over-expressed in several solid tumors. Firstly, we proved that the cyclic-RGD ligand binding to the integrin pocket is established and kept stable even in the presence of the cumbersome realistic model of the nanodevice. In this respect, the unsupervised machine learning analysis allowed a detailed comparison of the ligand/integrin binding in the presence and in the absence of the nanodevice, which unveiled differences in the chemical features. Then, we discovered that unbound cyclic RGDs conjugated to the NP largely contribute to the interactions between the nanodevice and the integrin. Finally, by increasing the density of cyclic RGDs on the PEGylated TiO2 NP, we observed a proportional enhancement of the nanodevice/target binding. All these findings can be exploited to achieve an improved targeting selectivity and cellular uptake, and thus a more successful clinical outcome.
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Affiliation(s)
- Giulia Frigerio
- Dipartimento di Scienza dei Materiali, Università di Milano-Bicocca, via R. Cozzi 55, 20125 Milano, Italy.
| | - Edoardo Donadoni
- Dipartimento di Scienza dei Materiali, Università di Milano-Bicocca, via R. Cozzi 55, 20125 Milano, Italy.
| | - Paulo Siani
- Dipartimento di Scienza dei Materiali, Università di Milano-Bicocca, via R. Cozzi 55, 20125 Milano, Italy.
| | - Jacopo Vertemara
- Dipartimento di Biotecnologie e Bioscienze, Università di Milano-Bicocca, Piazza della Scienza 1, 20126 Milan, Italy
| | - Stefano Motta
- Dipartimento di Scienze dell'Ambiente e del Territorio, Università di Milano-Bicocca, Piazza della Scienza 1, 20126 Milan, Italy
| | - Laura Bonati
- Dipartimento di Scienze dell'Ambiente e del Territorio, Università di Milano-Bicocca, Piazza della Scienza 1, 20126 Milan, Italy
| | - Luca De Gioia
- Dipartimento di Biotecnologie e Bioscienze, Università di Milano-Bicocca, Piazza della Scienza 1, 20126 Milan, Italy
| | - Cristiana Di Valentin
- Dipartimento di Scienza dei Materiali, Università di Milano-Bicocca, via R. Cozzi 55, 20125 Milano, Italy.
- BioNanoMedicine Center NANOMIB, Università di Milano-Bicocca, Italy
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3
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Lee S, Ki H, Lee SJ, Ihee H. Single-Molecule X-ray Scattering Used to Visualize the Conformation Distribution of Biological Molecules via Single-Object Scattering Sampling. Int J Mol Sci 2023; 24:17135. [PMID: 38138965 PMCID: PMC10743147 DOI: 10.3390/ijms242417135] [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: 11/01/2023] [Revised: 11/30/2023] [Accepted: 12/03/2023] [Indexed: 12/24/2023] Open
Abstract
Biological macromolecules, the fundamental building blocks of life, exhibit dynamic structures in their natural environment. Traditional structure determination techniques often oversimplify these multifarious conformational spectra by capturing only ensemble- and time-averaged molecular structures. Addressing this gap, in this work, we extend the application of the single-object scattering sampling (SOSS) method to diverse biological molecules, including RNAs and proteins. Our approach, referred to as "Bio-SOSS", leverages ultrashort X-ray pulses to capture instantaneous structures. In Bio-SOSS, we employ two gold nanoparticles (AuNPs) as labels, which provide strong contrast in the X-ray scattering signal, to ensure precise distance determinations between labeled sites. We generated hypothetical Bio-SOSS images for RNAs, proteins, and an RNA-protein complex, each labeled with two AuNPs at specified positions. Subsequently, to validate the accuracy of Bio-SOSS, we extracted distances between these nanoparticle labels from the images and compared them with the actual values used to generate the Bio-SOSS images. Specifically, for a representative RNA (1KXK), the standard deviation in distance discrepancies between molecular dynamics snapshots and Bio-SOSS retrievals was found to be optimally around 0.2 Å, typically within 1 Å under practical experimental conditions at state-of-the-art X-ray free-electron laser facilities. Furthermore, we conducted an in-depth analysis of how various experimental factors, such as AuNP size, X-ray properties, and detector geometry, influence the accuracy of Bio-SOSS. This comprehensive investigation highlights the practicality and potential of Bio-SOSS in accurately capturing the diverse conformation spectrum of biological macromolecules, paving the way for deeper insights into their dynamic natures.
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Affiliation(s)
- Seonggon Lee
- Department of Chemistry and KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea; (S.L.); (H.K.); (S.J.L.)
- Center for Advanced Reaction Dynamics (CARD), Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Hosung Ki
- Department of Chemistry and KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea; (S.L.); (H.K.); (S.J.L.)
- Center for Advanced Reaction Dynamics (CARD), Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Sang Jin Lee
- Department of Chemistry and KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea; (S.L.); (H.K.); (S.J.L.)
- Center for Advanced Reaction Dynamics (CARD), Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Hyotcherl Ihee
- Department of Chemistry and KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea; (S.L.); (H.K.); (S.J.L.)
- Center for Advanced Reaction Dynamics (CARD), Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
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4
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Yang T, Zhai J, Hu D, Yang R, Wang G, Li Y, Liang G. "Targeting Design" of Nanoparticles in Tumor Therapy. Pharmaceutics 2022; 14:pharmaceutics14091919. [PMID: 36145668 PMCID: PMC9501451 DOI: 10.3390/pharmaceutics14091919] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2022] [Revised: 09/01/2022] [Accepted: 09/06/2022] [Indexed: 11/22/2022] Open
Abstract
Tumor-targeted therapy based on nanoparticles is a popular research direction in the biomedical field. After decades of research and development, both the passive targeting ability of the inherent properties of NPs and the active targeting based on ligand receptor interaction have gained deeper understanding. Unfortunately, most targeted delivery strategies are still in the preclinical trial stage, so it is necessary to further study the biological fate of particles in vivo and the interaction mechanism with tumors. This article reviews different targeted delivery strategies based on NPs, and focuses on the physical and chemical properties of NPs (size, morphology, surface and intrinsic properties), ligands (binding number/force, activity and species) and receptors (endocytosis, distribution and recycling) and other factors that affect particle targeting. The limitations and solutions of these factors are further discussed, and a variety of new targeting schemes are introduced, hoping to provide guidance for future targeting design and achieve the purpose of rapid transformation of targeted particles into clinical application.
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Affiliation(s)
- Tingting Yang
- School of Basic Medical Sciences, Henan University of Science & Technology, Luoyang 471023, China
| | - Jingming Zhai
- Department of General Surgery, The First Affiliated Hospital, College of Clinical Medicine, Henan University of Science & Technology, Luoyang 471003, China
| | - Dong Hu
- School of Basic Medical Sciences, Henan University of Science & Technology, Luoyang 471023, China
| | - Ruyue Yang
- School of Basic Medical Sciences, Henan University of Science & Technology, Luoyang 471023, China
| | - Guidan Wang
- School of Basic Medical Sciences, Henan University of Science & Technology, Luoyang 471023, China
| | - Yuanpei Li
- School of Basic Medical Sciences, Henan University of Science & Technology, Luoyang 471023, China
- Correspondence: (Y.L.); (G.L.)
| | - Gaofeng Liang
- School of Basic Medical Sciences, Henan University of Science & Technology, Luoyang 471023, China
- Correspondence: (Y.L.); (G.L.)
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5
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Fleming A, Cursi L, Behan JA, Yan Y, Xie Z, Adumeau L, Dawson KA. Designing Functional Bionanoconstructs for Effective In Vivo Targeting. Bioconjug Chem 2022; 33:429-443. [PMID: 35167255 PMCID: PMC8931723 DOI: 10.1021/acs.bioconjchem.1c00546] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
![]()
The progress achieved
over the last three decades in the field
of bioconjugation has enabled the preparation of sophisticated nanomaterial–biomolecule
conjugates, referred to herein as bionanoconstructs, for a multitude
of applications including biosensing, diagnostics, and therapeutics.
However, the development of bionanoconstructs for the active targeting
of cells and cellular compartments, both in vitro and in vivo, is challenged by the lack of understanding
of the mechanisms governing nanoscale recognition. In this review,
we highlight fundamental obstacles in designing a successful bionanoconstruct,
considering findings in the field of bionanointeractions. We argue
that the biological recognition of bionanoconstructs is modulated
not only by their molecular composition but also by the collective
architecture presented upon their surface, and we discuss fundamental
aspects of this surface architecture that are central to successful
recognition, such as the mode of biomolecule conjugation and nanomaterial
passivation. We also emphasize the need for thorough characterization
of engineered bionanoconstructs and highlight the significance of
population heterogeneity, which too presents a significant challenge
in the interpretation of in vitro and in
vivo results. Consideration of such issues together will
better define the arena in which bioconjugation, in the future, will
deliver functional and clinically relevant bionanoconstructs.
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Affiliation(s)
- Aisling Fleming
- Centre for BioNano Interactions, School of Chemistry, University College Dublin, Belfield, Dublin 4, Ireland
| | - Lorenzo Cursi
- Centre for BioNano Interactions, School of Chemistry, University College Dublin, Belfield, Dublin 4, Ireland
| | - James A Behan
- Centre for BioNano Interactions, School of Chemistry, University College Dublin, Belfield, Dublin 4, Ireland
| | - Yan Yan
- UCD Conway Institute of Biomolecular and Biomedical Research, School of Biomolecular and Biomedical Science, University College Dublin, Belfield, Dublin 4, Ireland
| | - Zengchun Xie
- Centre for BioNano Interactions, School of Chemistry, University College Dublin, Belfield, Dublin 4, Ireland
| | - Laurent Adumeau
- Centre for BioNano Interactions, School of Chemistry, University College Dublin, Belfield, Dublin 4, Ireland
| | - Kenneth A Dawson
- Centre for BioNano Interactions, School of Chemistry, University College Dublin, Belfield, Dublin 4, Ireland
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6
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Ki H, Jo J, Kim Y, Kim TW, Kim C, Kim Y, Kim CW, Muniyappan S, Lee SJ, Kim Y, Kim HM, Yang Y, Rhee YM, Ihee H. Uncovering the Conformational Distribution of a Small Protein with Nanoparticle-Aided Cryo-Electron Microscopy Sampling. J Phys Chem Lett 2021; 12:6565-6573. [PMID: 34251825 DOI: 10.1021/acs.jpclett.1c01277] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Here, we introduce the nanoparticle-aided cryo-electron microscopy sampling (NACS) method to access the conformational distribution of a protein molecule. Two nanogold particles are labeled at two target sites, and the interparticle distance is measured as a structural parameter via cryo-electron microscopy (cryo-EM). The key aspect of NACS is that the projected distance information instead of the global conformational information is extracted from each protein molecule. This is possible because the contrast provided by the nanogold particles is strong enough to provide the projected distance, while the protein itself is invisible due to its low contrast. We successfully demonstrate that various protein conformations, even for small or disordered proteins, which generally cannot be accessed via cryo-EM, can be captured. The demonstrated method with the potential to directly observe the conformational distribution of such systems may open up new possibilities in studying their dynamics at a single-molecule level.
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Affiliation(s)
- Hosung Ki
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Junbeom Jo
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Youngmin Kim
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Tae Wu Kim
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Changin Kim
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Yeeun Kim
- Department of Physics, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
| | - Chang Woo Kim
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
| | - Srinivasan Muniyappan
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Sang Jin Lee
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Yonggwan Kim
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Ho Min Kim
- Center for Biomolecular & Cellular Structure, Institute for Basic Science (IBS), Daejeon 34126, Republic of Korea
- Graduate School of Medical Science & Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
| | - Yongsoo Yang
- Department of Physics, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
| | - Young Min Rhee
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
| | - Hyotcherl Ihee
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
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7
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Ellis GA, Díaz SA, Medintz IL. Enhancing enzymatic performance with nanoparticle immobilization: improved analytical and control capability for synthetic biochemistry. Curr Opin Biotechnol 2021; 71:77-90. [PMID: 34293630 DOI: 10.1016/j.copbio.2021.06.021] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2021] [Revised: 05/26/2021] [Accepted: 06/28/2021] [Indexed: 12/25/2022]
Abstract
Enzymes are incredibly potent catalysts with the potential for rapid turnover rates and exquisite specificity, leading to their desired use in multiple biotechnological processes. Yet using these natural catalysts outside of their evolved role can necessitate significant engineering. Immobilization onto microscale (or larger) scaffolds can impart industrially-desired properties but often sacrifices enzymatic activity for long-term stability; in contrast, nanoparticle (NP) conjugation of enzymes can preserve or even enhance their activity. Here, we focus on recent examples of enzyme immobilization onto NPs as a method to improve their industrial applicability. We highlight the analytical methods that are used to both characterize such enhancement along with provide insight into the phenomena that give rise to it. Finally, a short perspective addresses how to adapt lessons learned at the bench about this phenomena to larger-scale biotechnological applications.
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Affiliation(s)
- Gregory A Ellis
- Center for Bio/Molecular Science and Engineering, Code 6900, U.S. Naval Research Laboratory, Washington, D.C., 20375, USA
| | - Sebastían A Díaz
- Center for Bio/Molecular Science and Engineering, Code 6900, U.S. Naval Research Laboratory, Washington, D.C., 20375, USA
| | - Igor L Medintz
- Center for Bio/Molecular Science and Engineering, Code 6900, U.S. Naval Research Laboratory, Washington, D.C., 20375, USA.
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8
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Díaz SA, Choo P, Oh E, Susumu K, Klein WP, Walper SA, Hastman DA, Odom TW, Medintz IL. Gold Nanoparticle Templating Increases the Catalytic Rate of an Amylase, Maltase, and Glucokinase Multienzyme Cascade through Substrate Channeling Independent of Surface Curvature. ACS Catal 2020. [DOI: 10.1021/acscatal.0c03602] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Sebastián A. Díaz
- Center for Bio/Molecular Science and Engineering, Code 6900, U.S. Naval Research Laboratory, Washington, D.C., 20375, United States
| | - Priscilla Choo
- Department of Chemistry, Northwestern University, Evanston, Illinois 60208, United States
| | - Eunkeu Oh
- Optical Sciences Division, Code 5600, U.S. Naval Research Laboratory, Washington, D.C. 20375, United States
| | - Kimihiro Susumu
- Optical Sciences Division, Code 5600, U.S. Naval Research Laboratory, Washington, D.C. 20375, United States
- Jacobs Corporation, Hanover, Maryland 21076, United States
| | - William P. Klein
- Center for Bio/Molecular Science and Engineering, Code 6900, U.S. Naval Research Laboratory, Washington, D.C., 20375, United States
| | - Scott A. Walper
- Center for Bio/Molecular Science and Engineering, Code 6900, U.S. Naval Research Laboratory, Washington, D.C., 20375, United States
| | - David A. Hastman
- Center for Bio/Molecular Science and Engineering, Code 6900, U.S. Naval Research Laboratory, Washington, D.C., 20375, United States
- Fischell Department of Bioengineering, University of Maryland College Park, College Park, Maryland 20742, United States
| | - Teri W. Odom
- Department of Chemistry, Northwestern University, Evanston, Illinois 60208, United States
- Department of Materials Science and Engineering, Northwestern University, Evanston, Illinois 60208, United States
- International Institute for Nanotechnology, Northwestern University, Evanston, Illinois 60208, United States
| | - Igor L. Medintz
- Center for Bio/Molecular Science and Engineering, Code 6900, U.S. Naval Research Laboratory, Washington, D.C., 20375, United States
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9
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Jain A, Trindade GF, Hicks JM, Potts JC, Rahman R, Hague RJM, Amabilino DB, Pérez-García L, Rawson FJ. Modulating the biological function of protein by tailoring the adsorption orientation on nanoparticles. J Colloid Interface Sci 2020; 587:150-161. [PMID: 33360888 DOI: 10.1016/j.jcis.2020.12.025] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2020] [Revised: 11/27/2020] [Accepted: 12/09/2020] [Indexed: 11/25/2022]
Abstract
Protein orientation in nanoparticle-protein conjugates plays a crucial role in binding to cell receptors and ultimately, defines their targeting efficiency. Therefore, understanding fundamental aspects of the role of protein orientation upon adsorption on the surface of nanoparticles (NPs) is vital for the development of clinically important protein-based nanomedicines. In this work, new insights on the effect of the different orientation of cytochrome c (cyt c) bound to gold nanoparticles (GNPs) using various ligands on its apoptotic activity is reported. Time-of-Flight Secondary-Ion Mass Spectrometry (ToF-SIMS), electrochemical and circular dichroism (CD) analyses are used to investigate the characteristics of cyt c orientation and structure on functionalized GNPs. These studies indicate that the orientation and position of the heme ring inside the cyt c structure can be altered by changing the surface chemistry on the GNPs. A difference in the apoptosis inducing capability because of different orientation of cyt c bound to the GNPs is observed. These findings indicate that the biological activity of a protein can be modulated on the surface of NPs by varying its adsorption orientation. This study will impact on the rational design of new nanoscale biosensors, bioelectronics, and nanoparticle-protein based drugs.
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Affiliation(s)
- Akhil Jain
- Division of Regenerative Medicine and Cellular Therapies, School of Pharmacy, University of Nottingham, Nottingham NG7 2RD, UK
| | - Gustavo F Trindade
- Division of Advanced Materials and Healthcare Technologies, School of Pharmacy, University of Nottingham, Nottingham NG7 2RD, UK
| | - Jacqueline M Hicks
- Division of Regenerative Medicine and Cellular Therapies, School of Pharmacy, University of Nottingham, Nottingham NG7 2RD, UK
| | - Jordan C Potts
- Division of Advanced Materials and Healthcare Technologies, School of Pharmacy, University of Nottingham, Nottingham NG7 2RD, UK
| | - Ruman Rahman
- Children's Brain Tumour Research Centre, School of Medicine, University of Nottingham, Nottingham NG7 2UH, UK
| | - Richard J M Hague
- Centre for Additive Manufacturing, Faculty of Engineering, University of Nottingham, Nottingham NG8 1BB, UK
| | - David B Amabilino
- GSK Carbon Neutral Laboratories for Sustainable Chemistry, School of Chemistry, University of Nottingham, Nottingham NG7 2TU, UK
| | - Lluïsa Pérez-García
- Division of Advanced Materials and Healthcare Technologies, School of Pharmacy, University of Nottingham, Nottingham NG7 2RD, UK
| | - Frankie J Rawson
- Division of Regenerative Medicine and Cellular Therapies, School of Pharmacy, University of Nottingham, Nottingham NG7 2RD, UK.
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10
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Yong KW, Yuen D, Chen MZ, Johnston APR. Engineering the Orientation, Density, and Flexibility of Single-Domain Antibodies on Nanoparticles To Improve Cell Targeting. ACS APPLIED MATERIALS & INTERFACES 2020; 12:5593-5600. [PMID: 31917547 DOI: 10.1021/acsami.9b20993] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Nanoparticles targeted to specific cells have the potential to improve the delivery of therapeutics. The effectiveness of cell targeting can be significantly improved by optimizing how the targeting ligands are displayed on the nanoparticle surface. Crucial to optimizing the cell binding are the orientation, density, and flexibility of the targeting ligand on the nanoparticle surface. In this paper, we used an anti-EGFR single-domain antibody (sdAb or nanobody) to target fluorescent nanocrystals (Qdots) to epidermal growth factor receptor (EGFR)-positive cells. The sdAbs were expressed with a synthetic amino acid (azPhe), enabling site-specific conjugation to Qdots in an improved orientation. To optimize the targeting efficiency, we engineered the point of attachment (orientation), controlled the density of targeting groups on the surface of the Qdot, and optimized the length of the poly(ethylene glycol) linker used to couple the sdAb to the Qdot surface. By optimizing orientation, density, and flexibility, we improved cell targeting by more than an order of magnitude. This work highlights the importance of understanding the structure of the nanoparticle surface to achieve the optimal interactions with the intended receptors and how engineering the nanoparticle surface can significantly improve cell targeting.
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Affiliation(s)
- Ken W Yong
- Drug Delivery, Disposition and Dynamics, Monash Institute of Pharmaceutical Sciences , Monash University , Parkville , Victoria 3052 , Australia
- ARC Centre of Excellence in Convergent Bio-Nano Science and Technology , Monash University , Parkville , Victoria 3052 , Australia
| | - Daniel Yuen
- Drug Delivery, Disposition and Dynamics, Monash Institute of Pharmaceutical Sciences , Monash University , Parkville , Victoria 3052 , Australia
- ARC Centre of Excellence in Convergent Bio-Nano Science and Technology , Monash University , Parkville , Victoria 3052 , Australia
| | - Moore Z Chen
- Drug Delivery, Disposition and Dynamics, Monash Institute of Pharmaceutical Sciences , Monash University , Parkville , Victoria 3052 , Australia
- ARC Centre of Excellence in Convergent Bio-Nano Science and Technology , Monash University , Parkville , Victoria 3052 , Australia
| | - Angus P R Johnston
- Drug Delivery, Disposition and Dynamics, Monash Institute of Pharmaceutical Sciences , Monash University , Parkville , Victoria 3052 , Australia
- ARC Centre of Excellence in Convergent Bio-Nano Science and Technology , Monash University , Parkville , Victoria 3052 , Australia
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11
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Zhang C, Li X, Wang Z, Huang X, Ge Z, Hu B. Influence of Structured Water Layers on Protein Adsorption Process: A Case Study of Cytochrome c and Carbon Nanotube Interactions and Its Implications. J Phys Chem B 2020; 124:684-694. [PMID: 31880460 DOI: 10.1021/acs.jpcb.9b10192] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Cytochrome c, an essential protein of the electron transport chain, is known to be capable of amplifying the toxicity of carbon nanomaterials via free-radical generation. To understand their interaction, as well as the more general protein-nanoparticle interaction at molecular levels, we investigate the adsorptions between cytochrome c and carbon nanotubes (CNTs) in dynamic and thermodynamic ways using molecular dynamics simulations. The results reveal a well-defined three-phase process separated by two transition points: the diffusion phase where the protein diffuses in the water box, the lockdown phase I where the protein inserts into the surface-bound water layers and rearranges its conformation to fit to the surface of the CNT, and the lockdown phase II where cytochrome c repels the water molecules standing in its way to the surface of CNT and reaches stable adsorption states. The structured water layers affect the movement of atoms by electrostatic forces. In lockdown phase I, the conformation adjustment of the protein dominates the adsorption process. The most thermally favorable adsorption conformation is determined. It shows that except for the deformation of short β sheets and some portions of α helixes, most of the secondary structures of cytochrome c remain unchanged, implying that most of the functions of cytochrome c are preserved. During these processes, the energy contributions of the hydrophilic residues of cytochrome c are much larger than those of hydrophobic residues. Interestingly, the structured water layers at the CNT surface allow more hydrophilic residues such as Lys to get into close contact with the CNT, which plays a significant role during the anchoring process of adsorption. Our results demonstrate that the heme group is in close contact with the CNT in some of the adsorbed states, which hence provides a way for electron transfer from cytochrome c to the CNT surface.
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Affiliation(s)
- Chi Zhang
- Center of Materials Science and Optoelectronics Engineering, College of Materials Science and Opto-Electronic Technology , University of Chinese Academy of Sciences , Beijing 100049 , P. R. China
| | - Xiaoyi Li
- Center of Materials Science and Optoelectronics Engineering, College of Materials Science and Opto-Electronic Technology , University of Chinese Academy of Sciences , Beijing 100049 , P. R. China
| | - Zichen Wang
- Center of Materials Science and Optoelectronics Engineering, College of Materials Science and Opto-Electronic Technology , University of Chinese Academy of Sciences , Beijing 100049 , P. R. China
| | - Xuqi Huang
- Center of Materials Science and Optoelectronics Engineering, College of Materials Science and Opto-Electronic Technology , University of Chinese Academy of Sciences , Beijing 100049 , P. R. China
| | - Zhenpeng Ge
- Center of Materials Science and Optoelectronics Engineering, College of Materials Science and Opto-Electronic Technology , University of Chinese Academy of Sciences , Beijing 100049 , P. R. China
| | - Benfeng Hu
- Center of Materials Science and Optoelectronics Engineering, College of Materials Science and Opto-Electronic Technology , University of Chinese Academy of Sciences , Beijing 100049 , P. R. China
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12
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Francia V, Montizaan D, Salvati A. Interactions at the cell membrane and pathways of internalization of nano-sized materials for nanomedicine. BEILSTEIN JOURNAL OF NANOTECHNOLOGY 2020; 11:338-353. [PMID: 32117671 PMCID: PMC7034226 DOI: 10.3762/bjnano.11.25] [Citation(s) in RCA: 72] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/30/2019] [Accepted: 01/27/2020] [Indexed: 05/17/2023]
Abstract
Nano-sized materials have great potential as drug carriers for nanomedicine applications. Thanks to their size, they can exploit the cellular machinery to enter cells and be trafficked intracellularly, thus they can be used to overcome some of the cellular barriers to drug delivery. Nano-sized drug carriers of very different properties can be prepared, and their surface can be modified by the addition of targeting moieties to recognize specific cells. However, it is still difficult to understand how the material properties affect the subsequent interactions and outcomes at cellular level. As a consequence of this, designing targeted drugs remains a major challenge in drug delivery. Within this context, we discuss the current understanding of the initial steps in the interactions of nano-sized materials with cells in relation to nanomedicine applications. In particular, we focus on the difficult interplay between the initial adhesion of nano-sized materials to the cell surface, the potential recognition by cell receptors, and the subsequent mechanisms cells use to internalize them. The factors affecting these initial events are discussed. Then, we briefly describe the different pathways of endocytosis in cells and illustrate with some examples the challenges in understanding how nanomaterial properties, such as size, charge, and shape, affect the mechanisms cells use for their internalization. Technical difficulties in characterizing these mechanisms are presented. A better understanding of the first interactions of nano-sized materials with cells will help to design nanomedicines with improved targeting.
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Affiliation(s)
- Valentina Francia
- Groningen Research Institute of Pharmacy, University of Groningen, 9713AV Groningen, Netherlands
| | - Daphne Montizaan
- Groningen Research Institute of Pharmacy, University of Groningen, 9713AV Groningen, Netherlands
| | - Anna Salvati
- Groningen Research Institute of Pharmacy, University of Groningen, 9713AV Groningen, Netherlands
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13
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Spectroscopic approach for the interaction of carbon nanoparticles with cytochrome c and BY-2 cells: Protein structure and mitochondrial function. Int J Biol Macromol 2019; 138:29-36. [PMID: 31302123 DOI: 10.1016/j.ijbiomac.2019.07.076] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2019] [Revised: 07/10/2019] [Accepted: 07/10/2019] [Indexed: 12/24/2022]
Abstract
In this study, we employed multiple spectroscopic methods to analyze the effects of carbon nanoparticles (CNPs) on structure of cytochrome c (Cyt c) and mitochondrial function in plant cells. The tertiary structures of aromatic amino acid in Cyt c were not changed after addition of CNPs. Cyt c was found to be absorbed on the surfaces of CNPs in a non-linear manner and only bound Cyt c can be reduced. In addition, the binding of Cyt c was found to increase the diameter of CNPs at lower concentrations. The redox potential of Cyt c was almost not affected after treatment with CNPs. There were no obvious differences in cellular ATP after exposure to CNPs, and the mitochondrial membrane potential (MMP) was significantly decreased once the CNPs concentration exceeded 31.25 μg/mL. The levels of reactive oxygen species (ROS) also were increased in BY-2 cells. Taken together, these findings provide basis for the interactions between CNPs and Cyt c, as well as the effect of CNPs treatment on the mitochondria function in plant cells.
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14
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Hosier CA, Ackerson CJ. Regiochemistry of Thiolate for Selenolate Ligand Exchange on Gold Clusters. J Am Chem Soc 2018; 141:309-314. [PMID: 30532966 DOI: 10.1021/jacs.8b10013] [Citation(s) in RCA: 48] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
Ligand exchange is a fundamental reaction of metal nanoparticles. Multiple symmetry and kinetic exchange environments are observed for thiolate protected gold nanoparticles, but the correlation between these is unclear. Structural study of ligand exchange on chalcogenide passivated gold clusters has so-far revealed the locations of 10% or fewer of incoming ligands. In a set of 13 crystal structures, we reveal the locations of up to 17 ligands of the 18 ligands in thiolate for selenolate exchanged Au25(SeR)18- x(SR) x clusters. Overall, we see a distinct preference for the locations of thiolate and selenolate ligands that emerges over time. This most-comprehensive to-date structural study of ligand exchange on gold clusters evidences a structural basis for exchange of solvated ligands, exchange of ligands between clusters, and a net reaction that amounts to translation of ligands on the cluster surface.
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Affiliation(s)
- Christopher A Hosier
- Department of Chemistry , Colorado State University , Fort Collins , Colorado 80523 , United States
| | - Christopher J Ackerson
- Department of Chemistry , Colorado State University , Fort Collins , Colorado 80523 , United States
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15
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Jung H, Jung J, Kim YH, Kwon D, Kim BG, Na HB, Lee HH. Surface Plasmon Resonance Characteristics of Au Nanoparticles Layered Sensor Chip for Direct Detection of Stress Hormone Conjugated by Nanoparticles. BIOCHIP JOURNAL 2018. [DOI: 10.1007/s13206-018-2310-4] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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16
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Kozlowski R, Ragupathi A, Dyer RB. Characterizing the Surface Coverage of Protein-Gold Nanoparticle Bioconjugates. Bioconjug Chem 2018; 29:2691-2700. [PMID: 30004227 PMCID: PMC6093776 DOI: 10.1021/acs.bioconjchem.8b00366] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
Functional enzyme-nanoparticle bioconjugates are increasingly important in biomedical and biotechnology applications such as drug delivery and biosensing. Optimization of the function of such bioconjugates requires careful control and characterization of their structures and activity, but current methods are inadequate for this purpose. A key shortcoming of existing approaches is the lack of an accurate method for quantitating protein content of bioconjugates for low (monolayer) surface coverages. In this study, an integrated characterization methodology for protein-gold nanoparticle (AuNP) bioconjugates is developed, with a focus on site-specific attachment and surface coverage of protein on AuNPs. Single-cysteine-containing mutants of dihydrofolate reductase are covalently attached to AuNPs with diameters of 5, 15, and 30 nm, providing a range of surface curvature. Site-specific attachment to different regions of the protein surface is investigated, including attachment to a flexible loop versus a rigid α helix. Characterization methods include SDS-PAGE, UV-vis spectrophotometry, dynamic light scattering, and a novel fluorescence-based method for accurate determination of low protein concentration on AuNPs. An accurate determination of both protein and AuNP concentration in conjugate samples allows for the calculation of the surface coverage. We find that surface coverage is related to the surface curvature of the AuNP, with a higher surface coverage observed for higher surface curvature. The combination of these characterization methods is important for understanding the functionality of protein-AuNP bioconjugates, particularly enzyme activity.
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Affiliation(s)
- Rachel Kozlowski
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | - Ashwin Ragupathi
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | - R. Brian Dyer
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
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17
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Zettl T, Das R, Harbury PAB, Herschlag D, Lipfert J, Mathew RS, Shi X. Recording and Analyzing Nucleic Acid Distance Distributions with X-Ray Scattering Interferometry (XSI). ACTA ACUST UNITED AC 2018; 73:e54. [PMID: 29927110 DOI: 10.1002/cpnc.54] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Most structural techniques provide averaged information or information about a single predominant conformational state. However, biological macromolecules typically function through series of conformations. Therefore, a complete understanding of macromolecular structures requires knowledge of the ensembles that represent probabilities on a conformational free energy landscape. Here we describe an emerging approach, X-ray scattering interferometry (XSI), a method that provides instantaneous distance distributions for molecules in solution. XSI uses gold nanocrystal labels site-specifically attached to a macromolecule and measures the scattering interference from pairs of heavy metal labels. The recorded signal can directly be transformed into a distance distribution between the two probes. We describe the underlying concepts, present a detailed protocol for preparing samples and recording XSI data, and provide a custom-written graphical user interface to facilitate XSI data analysis. © 2018 by John Wiley & Sons, Inc.
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Affiliation(s)
- Thomas Zettl
- Department of Physics, Nanosystems Initiative Munich, and Center for Nanoscience, LMU Munich, Munich, Germany.,Department of Biochemistry, Stanford University, Stanford, California
| | - Rhiju Das
- Department of Biochemistry, Stanford University, Stanford, California.,Department of Physics, Stanford University, Stanford, California
| | - Pehr A B Harbury
- Department of Biochemistry, Stanford University, Stanford, California
| | - Daniel Herschlag
- Department of Biochemistry, Stanford University, Stanford, California.,Department of Chemical Engineering, Stanford University, Stanford, California
| | - Jan Lipfert
- Department of Physics, Nanosystems Initiative Munich, and Center for Nanoscience, LMU Munich, Munich, Germany
| | - Rebecca S Mathew
- Department of Cell Biology, Harvard Medical School, Harvard University, Boston, Massachusetts
| | - Xuesong Shi
- Department of Biochemistry, Stanford University, Stanford, California
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18
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Scaletti F, Hardie J, Lee YW, Luther DC, Ray M, Rotello VM. Protein delivery into cells using inorganic nanoparticle-protein supramolecular assemblies. Chem Soc Rev 2018. [PMID: 29537040 DOI: 10.1039/c8cs00008e] [Citation(s) in RCA: 132] [Impact Index Per Article: 22.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
The delivery of proteins into cells is a potential game changer for a wide array of therapeutic purposes, including cancer therapy, immunomodulation and treatment of inherited diseases. In this review, we present recently developed nanoassemblies for protein delivery that utilize strategies that range from direct assembly, encapsulation and composite formation. We will discuss factors that affect the efficacy of nanoassemblies for delivery from the perspective of both nanoparticles and proteins. Challenges in the field, particularly achieving effective cytosolar protein delivery through endosomal escape or evasion are discussed.
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Affiliation(s)
- Federica Scaletti
- Department of Chemistry, University of Massachusetts Amherst, 710 N. Pleasant St., Amherst, USA.
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19
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Placido T, Tognaccini L, Howes BD, Montrone A, Laquintana V, Comparelli R, Curri ML, Smulevich G, Agostiano A. Surface Engineering of Gold Nanorods for Cytochrome c Bioconjugation: An Effective Strategy To Preserve the Protein Structure. ACS OMEGA 2018; 3:4959-4967. [PMID: 30221229 PMCID: PMC6130780 DOI: 10.1021/acsomega.8b00719] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/13/2018] [Accepted: 04/26/2018] [Indexed: 06/08/2023]
Abstract
The surface of gold nanorods (Au NRs) has been appropriately engineered to achieve a suitable interface for bioconjugation with horse heart cytochrome c (HCc). HCc, an extensively studied and well-characterized protein, represents an ideal model for nanoparticle (NP)-protein conjugation studies because of its small size, high stability, and commercial availability. Here, the native state of the protein has been demonstrated for the first time, by means of Raman spectroscopy, to be retained upon conjugation with the anisotropic Au nanostructures, thus validating the proposed protocol as specifically suited to mostly preserve the plasmonic properties of the NRs and to retain the structure of the protein. The successful creation of such bioconjugates with the retention of the protein structure and function along with the preservation of the NP properties represents a challenging but essential task, as it provides the only way to access functional hybrid systems with potential applications in biotechnology, medicine, and catalysis. In this perspective, the organic capping surrounding the Au NRs plays a key role, as it represents the functional interface for the conjugation step. Cetyltrimethylammonium bromide-coated Au NRs, prepared by using a seed-mediated synthetic route, have been wrapped with polyacrylic acid (PAA) by means of electrostatic interactions following a layer-by-layer approach. The resulting water-dispersible negatively charged AuNRs@PAA NPs have then been electrostatically bound to the positively charged HCc. The bioconjugation procedure has been thoroughly monitored by the combined analysis of UV-vis absorption, resonance Raman and Fourier transform infrared spectroscopies, transmission electron microscopy microscopy, and ζ-potential, which verified the successful conjugation of the protein to the nanorods.
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Affiliation(s)
- Tiziana Placido
- CNR-IPCF
Istituto per I Processi Chimico-Fisici, S.S. Bari, c/o Dip. Chimica, Via Orabona 4, 70126 Bari, Italy
| | - Lorenzo Tognaccini
- Dipartimento
di Chimica “Ugo Schiff”, Università
di Firenze, Via della
Lastruccia 3-13, Sesto Fiorentino, 50019 Florence, Italy
| | - Barry D. Howes
- Dipartimento
di Chimica “Ugo Schiff”, Università
di Firenze, Via della
Lastruccia 3-13, Sesto Fiorentino, 50019 Florence, Italy
| | - Alessandro Montrone
- Università
degli Studi di Bari—Dip. di Chimica, Via Orabona 4, 70126 Bari, Italy
| | - Valentino Laquintana
- Dipartimento
di Farmacia—Scienze del Farmaco, Università degli Studi di Bari, Via Orabona 4, 70126 Bari, Italy
| | - Roberto Comparelli
- CNR-IPCF
Istituto per I Processi Chimico-Fisici, S.S. Bari, c/o Dip. Chimica, Via Orabona 4, 70126 Bari, Italy
| | - M. Lucia Curri
- CNR-IPCF
Istituto per I Processi Chimico-Fisici, S.S. Bari, c/o Dip. Chimica, Via Orabona 4, 70126 Bari, Italy
| | - Giulietta Smulevich
- Dipartimento
di Chimica “Ugo Schiff”, Università
di Firenze, Via della
Lastruccia 3-13, Sesto Fiorentino, 50019 Florence, Italy
| | - Angela Agostiano
- CNR-IPCF
Istituto per I Processi Chimico-Fisici, S.S. Bari, c/o Dip. Chimica, Via Orabona 4, 70126 Bari, Italy
- Università
degli Studi di Bari—Dip. di Chimica, Via Orabona 4, 70126 Bari, Italy
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20
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Zettl T, Mathew RS, Shi X, Doniach S, Herschlag D, Harbury PAB, Lipfert J. Gold nanocrystal labels provide a sequence-to-3D structure map in SAXS reconstructions. SCIENCE ADVANCES 2018; 4:eaar4418. [PMID: 29806025 PMCID: PMC5969820 DOI: 10.1126/sciadv.aar4418] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/08/2017] [Accepted: 04/17/2018] [Indexed: 06/08/2023]
Abstract
Small-angle x-ray scattering (SAXS) is a powerful technique to probe the structure of biological macromolecules and their complexes under virtually arbitrary solution conditions, without the need for crystallization. While it is possible to reconstruct molecular shapes from SAXS data ab initio, the resulting electron density maps have a resolution of ~1 nm and are often insufficient to reliably assign secondary structure elements or domains. We show that SAXS data of gold-labeled samples significantly enhance the information content of SAXS measurements, allowing the unambiguous assignment of macromolecular sequence motifs to specific locations within a SAXS structure. We first demonstrate our approach for site-specifically internally and end-labeled DNA and an RNA motif. In addition, we present a protocol for highly uniform and site-specific labeling of proteins with small (~1.4 nm diameter) gold particles and apply our method to the signaling protein calmodulin. In all cases, the position of the small gold probes can be reliably identified in low-resolution electron density maps. Enhancing low-resolution measurements by site-selective gold labeling provides an attractive approach to aid modeling of a large range of macromolecular systems.
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Affiliation(s)
- Thomas Zettl
- Department of Physics, Nanosystems Initiative Munich, and Center for Nanoscience, LMU Munich, Munich, Germany
- Department of Biochemistry, Stanford University, Stanford, CA 94305, USA
| | - Rebecca S. Mathew
- Department of Cell Biology, Harvard Medical School, Harvard University, Boston, MA 02115, USA
| | - Xuesong Shi
- Department of Biochemistry, Stanford University, Stanford, CA 94305, USA
| | - Sebastian Doniach
- Departments of Applied Physics and Physics, Stanford University, Stanford, CA 94305, USA
| | - Daniel Herschlag
- Department of Biochemistry, Stanford University, Stanford, CA 94305, USA
- Department of Chemical Engineering, Stanford University, Stanford, CA 94305, USA
| | - Pehr A. B. Harbury
- Department of Biochemistry, Stanford University, Stanford, CA 94305, USA
| | - Jan Lipfert
- Department of Physics, Nanosystems Initiative Munich, and Center for Nanoscience, LMU Munich, Munich, Germany
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21
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Rodriguez-Quijada C, Sánchez-Purrà M, de Puig H, Hamad-Schifferli K. Physical Properties of Biomolecules at the Nanomaterial Interface. J Phys Chem B 2018; 122:2827-2840. [DOI: 10.1021/acs.jpcb.8b00168] [Citation(s) in RCA: 45] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
| | - Maria Sánchez-Purrà
- Department of Engineering, University of Massachusetts, Boston, Massachusetts 02125, United States
| | - Helena de Puig
- Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Kimberly Hamad-Schifferli
- Department of Engineering, University of Massachusetts, Boston, Massachusetts 02125, United States
- Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
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22
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Zhao X, Zhang W, Peng C, Liang Y, Wang W. Sensitive surface-enhanced Raman scattering of TiO2/Ag nanowires induced by photogenerated charge transfer. J Colloid Interface Sci 2017; 507:370-377. [DOI: 10.1016/j.jcis.2017.08.023] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2017] [Revised: 08/07/2017] [Accepted: 08/07/2017] [Indexed: 01/25/2023]
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23
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Voet ARD, Tame JRH. Protein-templated synthesis of metal-based nanomaterials. Curr Opin Biotechnol 2017; 46:14-19. [DOI: 10.1016/j.copbio.2016.10.015] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2016] [Accepted: 10/24/2016] [Indexed: 01/07/2023]
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24
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Maji A, Beg M, Mandal AK, Das S, Jha PK, Kumar A, Sarwar S, Hossain M, Chakrabarti P. Spectroscopic interaction study of human serum albumin and human hemoglobin with Mersilea quadrifolia leaves extract mediated silver nanoparticles having antibacterial and anticancer activity. J Mol Struct 2017. [DOI: 10.1016/j.molstruc.2017.04.005] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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25
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Colangelo E, Comenge J, Paramelle D, Volk M, Chen Q, Lévy R. Characterizing Self-Assembled Monolayers on Gold Nanoparticles. Bioconjug Chem 2016; 28:11-22. [DOI: 10.1021/acs.bioconjchem.6b00587] [Citation(s) in RCA: 56] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Affiliation(s)
- Elena Colangelo
- Institute
of Integrative Biology, University of Liverpool, Crown Street, L69 7ZB Liverpool, United Kingdom
| | - Joan Comenge
- Institute
of Integrative Biology, University of Liverpool, Crown Street, L69 7ZB Liverpool, United Kingdom
| | - David Paramelle
- Institute
of Materials Research and Engineering, A*STAR (Agency for Science, Technology and Research), 2 Fusionopolis Way, #08-03 Innovis, Singapore 138634
| | - Martin Volk
- Department
of Chemistry, University of Liverpool, Liverpool L69 7ZD, United Kingdom
- Surface
Science Research Centre, Department of Chemistry, Abercromby Square, University of Liverpool, Liverpool L69 3BX, United Kingdom
| | - Qiubo Chen
- Institute
of High Performance Computing, A*STAR (Agency for Science, Technology and Research), 1 Fusionopolis Way, #16-16 Connexis North, Singapore 138632
| | - Raphaël Lévy
- Institute
of Integrative Biology, University of Liverpool, Crown Street, L69 7ZB Liverpool, United Kingdom
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26
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Affiliation(s)
- Ivano Alessandri
- INSTM
and Chemistry for Technologies Laboratory, University of Brescia, Brescia 25123, Italy
| | - John R. Lombardi
- Department
of Chemistry, The City College of New York, New York 10031, United States
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27
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Alessandri I, Biavardi E, Gianoncelli A, Bergese P, Dalcanale E. Cavitands Endow All-Dielectric Beads With Selectivity for Plasmon-Free Enhanced Raman Detection of Nε-Methylated Lysine. ACS APPLIED MATERIALS & INTERFACES 2016; 8:14944-14951. [PMID: 26571376 DOI: 10.1021/acsami.5b08190] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
SiO2/TiO2 microbeads (T-rex) are promising materials for plasmon-free surface-enhanced Raman scattering (SERS), offering several key advantages in biodiagnostics. In this paper we report the combination of T-rex beads with tetraphosphonate cavitands (Tiiii), which imparts selectivity toward Nε-methylated lysine. SERS experiments demonstrated the efficiency and selectivity of the T-rex-Tiiii assays in detecting methylated lysine hydrochloride (Nε-Me-Lys-Fmoc) from aqueous solutions, even in the presence of the parent Lys-Fmoc hydrochloride as interferent. The negative results obtained in control experiments using TSiiii ruled out any other form of surface recognition or preferential physisorption. MALDI-TOF analyses on the beads exposed to Nε-Me-Lys-Fmoc revealed the presence of the Tiiii•Nε-Me-Lys-Fmoc complex. Raman analyses based on the intensity ratio of Nε-Me-Lys-Fmoc and cavitand-specific modes resulted in a dose-response plot, which allowed for estimating the concentration of Nε-methylated lysine from initial solutions in the 1 × 10(-3) to 1 × 10(-5) M range. These results can set the basis for the development of new Raman assays for epigenetic diagnostics.
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Affiliation(s)
- Ivano Alessandri
- INSTM and Chemistry for Technologies Laboratory, University of Brescia , via Branze 38, 25123 Brescia, Italy
| | - Elisa Biavardi
- Department of Chemistry and INSTM Ru, University of Parma , Parco area delle Scienze 17/A, 43124 Parma, Italy
| | - Alessandra Gianoncelli
- INSTM and Department of Molecular and Translational Medicine, University of Brescia , Viale Europa 11, 25123 Brescia, Italy
| | - Paolo Bergese
- INSTM and Department of Molecular and Translational Medicine, University of Brescia , Viale Europa 11, 25123 Brescia, Italy
| | - Enrico Dalcanale
- Department of Chemistry and INSTM Ru, University of Parma , Parco area delle Scienze 17/A, 43124 Parma, Italy
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28
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Li S, Peng Z, Dallman J, Baker J, Othman AM, Blackwelder PL, Leblanc RM. Crossing the blood-brain-barrier with transferrin conjugated carbon dots: A zebrafish model study. Colloids Surf B Biointerfaces 2016; 145:251-256. [PMID: 27187189 DOI: 10.1016/j.colsurfb.2016.05.007] [Citation(s) in RCA: 81] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2016] [Revised: 05/02/2016] [Accepted: 05/04/2016] [Indexed: 12/22/2022]
Abstract
Drug delivery to the central nervous system (CNS) in biological systems remains a major medical challenge due to the tight junctions between endothelial cells known as the blood-brain-barrier (BBB). Here we use a zebrafish model to explore the possibility of using transferrin-conjugated carbon dots (C-Dots) to ferry compounds across the BBB. C-Dots have previously been reported to inhibit protein fibrillation, and they are also used to deliver drugs for disease treatment. In terms of the potential medical application of C-Dots for the treatment of CNS diseases, one of the most formidable challenges is how to deliver them inside the CNS. To achieve this in this study, human transferrin was covalently conjugated to C-Dots. The conjugates were then injected into the vasculature of zebrafish to examine the possibility of crossing the BBB in vivo via transferrin receptor-mediated endocytosis. The experimental observations suggest that the transferrin-C-Dots can enter the CNS while C-Dots alone cannot.
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Affiliation(s)
- Shanghao Li
- Department of Chemistry, University of Miami, 1301 Memorial Drive, Coral Gables, FL, 33146, United States
| | - Zhili Peng
- Department of Chemistry, University of Miami, 1301 Memorial Drive, Coral Gables, FL, 33146, United States
| | - Julia Dallman
- Department of Biology, University of Miami, 1301 Memorial Drive, Coral Gables, FL, 33146, United States
| | - James Baker
- Department of Biology, University of Miami, 1301 Memorial Drive, Coral Gables, FL, 33146, United States
| | - Abdelhameed M Othman
- Department of Chemistry, Faculty of Science in Yanbu, Taibah University, Yanbu, Saudi Arabia; Department of Environmental Biotechnology, Genetic Engineering and Biotechnology, University of Sadat City, Sadat City, Egypt
| | - Patrica L Blackwelder
- University of Miami Center for Advanced Microscopy and Marine Geosciences, 1301 Memorial Drive, University of Miami, Coral Gables, FL, 33146, United States; Nova Southeastern University Oceanographic Center, 8000 North Ocean Drive, Dania, FL, 33004, United States
| | - Roger M Leblanc
- Department of Chemistry, University of Miami, 1301 Memorial Drive, Coral Gables, FL, 33146, United States.
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29
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Compel WS, Wong OA, Chen X, Yi C, Geiss R, Häkkinen H, Knappenberger KL, Ackerson CJ. Dynamic Diglyme-Mediated Self-Assembly of Gold Nanoclusters. ACS NANO 2015; 9:11690-11698. [PMID: 26530638 DOI: 10.1021/acsnano.5b02850] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
We report the assembly of gold nanoclusters by the nonthiolate ligand diglyme into discrete and dynamic assemblies. To understand this surprising phenomenon, the assembly of Au20(SC2H4Ph)15-diglyme into Au20(SC2H4Ph)15-diglyme-Au20(SC2H4Ph)15 is explored in detail. The assembly is examined by high-angle annular dark field scanning transmission electron microscopy, size exclusion chromatography, mass spectrometry, IR spectroscopy, and calorimetry. We establish a dissociation constant for dimer to monomer conversion of 20.4 μM. Theoretical models validated by transient absorption spectroscopy predict a low-spin monomer and a high-spin dimer, with assembly enabled through weak diglyme oxygen-gold interactions. Close spatial coupling allows electron delocalization between the nanoparticle cores. The resulting assemblies thus possess optical and electronic properties that emerge as a result of assembly.
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Affiliation(s)
- W Scott Compel
- Department of Chemistry, Colorado State University , Fort Collins, Colorado 80523, United States
| | - O Andrea Wong
- Department of Chemistry, Colorado State University , Fort Collins, Colorado 80523, United States
| | - Xi Chen
- Departments of Chemistry and Physics, Nanoscience Center, University of Jyväskylä , 40014 Jyväskylä, Finland
| | - Chongyue Yi
- Department of Chemistry and Biochemistry, Florida State University , Tallahassee, Florida 32306, United States
| | - Roy Geiss
- Department of Chemistry, Colorado State University , Fort Collins, Colorado 80523, United States
| | - Hannu Häkkinen
- Departments of Chemistry and Physics, Nanoscience Center, University of Jyväskylä , 40014 Jyväskylä, Finland
| | - Kenneth L Knappenberger
- Department of Chemistry and Biochemistry, Florida State University , Tallahassee, Florida 32306, United States
| | - Christopher J Ackerson
- Department of Chemistry, Colorado State University , Fort Collins, Colorado 80523, United States
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30
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Lin W, insley T, Tuttle MD, Zhu L, Berthold DA, Král P, Rienstra CM, Murphy CJ. Control of protein orientation on gold nanoparticles. THE JOURNAL OF PHYSICAL CHEMISTRY. C, NANOMATERIALS AND INTERFACES 2015; 119:21035-21043. [PMID: 28626495 PMCID: PMC5472360 DOI: 10.1021/acs.jpcc.5b07701] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
Gold nanoparticles (Au NPs) have attracted much attention due to their potential applications in nano-medicine. While numerous studies have quantified biomolecular adsorption to Au NPs in terms of equilibrium binding constants, far less is known about biomolecular orientation on nanoparticle surfaces. In this study, the binding of the protein α-synuclein to citrate and (16-mercaptohexadecyl) trimethylammonium bromide (MTAB) coated 12 nm Au NPs is examined by heteronuclear single quantum coherence NMR spectroscopy to provide site-specific measurements of protein-nanoparticle binding. Molecular dynamics simulations support the orientation assignments, which show N-terminus binding to the Au NP for citrate-capped NPs, and C-terminus binding for the MTAB-capped NPs.
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Affiliation(s)
- Wayne Lin
- Department of Chemistry, University of Illinois at Urbana-Champaign, 600 South Matthews Avenue, Urbana, Illinois, 61801, USA
| | - Thomas insley
- Department of Chemistry, University of Illinois at Chicago, 845 West Taylor Street, Chicago, Illinois, 60607, USA
| | - Marcus D. Tuttle
- Department of Chemistry, University of Illinois at Urbana-Champaign, 600 South Matthews Avenue, Urbana, Illinois, 61801, USA
| | - Lingyang Zhu
- School of Chemical Sciences, University of Illinois at Urbana-Champaign, 505 South Matthews Avenue, Urbana, Illinois, 61801, USA
| | - Deborah A. Berthold
- Department of Chemistry, University of Illinois at Urbana-Champaign, 600 South Matthews Avenue, Urbana, Illinois, 61801, USA
| | - Petr Král
- Department of Chemistry, University of Illinois at Chicago, 845 West Taylor Street, Chicago, Illinois, 60607, USA
- Department of Physics, University of Illinois at Chicago, 845 West Taylor Street, Chicago, Illinois, 60607, USA
| | - Chad M. Rienstra
- Department of Chemistry, University of Illinois at Urbana-Champaign, 600 South Matthews Avenue, Urbana, Illinois, 61801, USA
- Department of Biochemistry, University of Illinois at Urbana-Champaign, 600 South Matthews Avenue, Urbana, Illinois, 61801, USA
- Center for Biophysics and Computational Biology, University of Illinois at Urbana-Champaign, 607 South Matthews Avenue, Urbana, Illinois, 61801, USA
| | - Catherine J. Murphy
- Department of Chemistry, University of Illinois at Urbana-Champaign, 600 South Matthews Avenue, Urbana, Illinois, 61801, USA
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31
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Hamad-Schifferli K. Exploiting the novel properties of protein coronas: emerging applications in nanomedicine. Nanomedicine (Lond) 2015; 10:1663-74. [DOI: 10.2217/nnm.15.6] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023] Open
Abstract
Protein coronas have been the focus of a great deal of study recently due to their inevitable formation and their impact on the biological consequences of nanomaterials. Although the field is still far from completely and definitively understanding protein coronas, we now have a good understanding of their behavior and their key characteristics. Protein corona composition changes with the environment and time, and also the physical properties of the underlying nanoparticle. More importantly, the protein corona has significant biological impact. Because we have a basic understanding of coronas, we can now move forward to exploiting their unique properties. Here, we discuss some emerging ways in which the protein corona is explicitly utilized for different applications in biology and medicine.
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32
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Zhang Z, Liu J, Qi ZM, Lu DF. In situ study of self-assembled nanocomposite films by spectral SPR sensor. MATERIALS SCIENCE & ENGINEERING. C, MATERIALS FOR BIOLOGICAL APPLICATIONS 2015; 51:242-7. [PMID: 25842131 DOI: 10.1016/j.msec.2015.02.026] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/13/2014] [Revised: 12/25/2014] [Accepted: 02/21/2015] [Indexed: 11/30/2022]
Abstract
Spectral surface plasmon resonance (SPR) sensor with a time-resolved charge-coupled device (CCD) detector is a powerful analytical tool for label-free detection of biomolecular interaction at the liquid/solid interface and for in situ study of molecular adsorption behavior. In this work, the layer-by-layer self-assembly processes for three nanocomposite films were monitored in real time using a broadband spectral SPR sensor with a large dynamic range. Kinetics studies suggest that cytochrome c (Cyt c) and deoxy ribonucleic acid (DNA) adsorptions obey the Langmuir-isotherm theory, while gold nanoparticle (GNP) adsorption follows the Diffusion-controlled model. Using poly(sodium 4-styrenesulfonate) (PSS) and poly(dimethyldiallylammonium chloride) (PDDA) as the positively charged agents, three kinds of multilayer films such as the PSS/Cyt c, GNP/Cyt c and PDDA/DNA binary nanocomposites were fabricated on the SPR chips by the electrostatic attraction based on self-assemble. The SPR response in terms of ΔλR was measured to linear increase with increasing the number of layers for a six-bilayer PSS/Cyt c nanocomposite film, indicating that every PSS/Cyt c layer has equal mass coverage. In contrast, the nonlinear dependences of ΔλR on the number of bilayers were observed for the GNP/Cyt c and PDDA/DNA nanocomposite multilayer films.
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Affiliation(s)
- Zhe Zhang
- Department of Biomedical Engineering, School of Computer and Information Technology, Beijing Jiaotong University, Beijing 100044, China
| | - Jie Liu
- Department of Biomedical Engineering, School of Computer and Information Technology, Beijing Jiaotong University, Beijing 100044, China.
| | - Zhi-mei Qi
- State Key Laboratory of Transducer Technology, Institute of Electronics, Chinese Academy of Sciences, Beijing 100190, China
| | - Dan-feng Lu
- State Key Laboratory of Transducer Technology, Institute of Electronics, Chinese Academy of Sciences, Beijing 100190, China
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33
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Varbiro G. Enhancement of the Cytotoxic Effect of Anticancer Agent by Cytochrome c Functionalised Hybrid Nanoparticles in Hepatocellular Cancer Cells. ACTA ACUST UNITED AC 2014. [DOI: 10.15406/jnmr.2014.01.00010] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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34
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Capehart SL, ElSohly AM, Obermeyer AC, Francis MB. Bioconjugation of gold nanoparticles through the oxidative coupling of ortho-aminophenols and anilines. Bioconjug Chem 2014; 25:1888-92. [PMID: 25275488 DOI: 10.1021/bc5003746] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
While there are a number of methods for attaching gold nanoparticles (AuNPs) to biomolecules, the existing strategies suffer from nonspecific AuNP adsorption, reagents that are unstable in aqueous solutions, and/or long reaction times. To improve upon existing AuNP bioconjugation strategies, we have adapted a recently reported potassium ferricyanide-mediated oxidative coupling reaction for the attachment of aniline-functionalized AuNPs to o-aminophenol-containing oligonucleotides, peptides, and proteins. The aniline-AuNPs are stable in aqueous solutions, show little-to-no nonspecific adsorption with biomolecules, and react rapidly (30 min) with o-aminophenols under mild conditions (pH 6.5, 1 mM oxidant).
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Affiliation(s)
- Stacy L Capehart
- Department of Chemistry, University of California, Berkeley , Berkeley, California 94720, United States
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35
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Stueker O, Ortega VA, Goss GG, Stepanova M. Understanding interactions of functionalized nanoparticles with proteins: a case study on lactate dehydrogenase. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2014; 10:2006-2021. [PMID: 24591162 DOI: 10.1002/smll.201303639] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2013] [Revised: 01/10/2014] [Indexed: 06/03/2023]
Abstract
Nanomaterials in biological solutions are known to interact with proteins and have been documented to affect protein function, such as enzyme activity. Understanding the interactions of nanoparticles with biological components at the molecular level will allow for rational designs of nanomaterials for use in medical technologies. Here we present the first detailed molecular mechanics model of functionalized gold nanoparticle (NP) interacting with an enzyme (L-lactate dehydrogenase (LDH) enzyme). Molecular dynamics (MD) simulations of the response of LDH to the NP binding demonstrate that although atomic motions (dynamics) of the main chain exhibit only a minor response to the binding, the dynamics of side chains are significantly constrained in all four active sites that predict alteration in kinetic properties of the enzyme. It is also demonstrated that the 5 nm gold NPs cause a decrease in the maximal velocity of the enzyme reaction (V(max)) and a trend towards a reduced affinity (increased K(m)) for the β-NAD binding site, while pyruvate enzyme kinetics (K(m) and V(max)) are not significantly altered in the presence of the gold NPs. These results demonstrate that modeling of NP:protein interactions can be used to understand alterations in protein function.
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Affiliation(s)
- Oliver Stueker
- National Institute for Nanotechnology, National Research Council of Canada, 11421 Saskatchewan Drive, EdmontonAlberta, T6G 2M9, Canada; Department of Electrical and Computer Engineering, University of Alberta, 9107-116 Street, Edmonton, Alberta, T6G 2V4, Canada
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36
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Alessandri I, Depero LE. All-oxide Raman-active traps for light and matter: probing redox homeostasis model reactions in aqueous environment. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2014; 10:1294-1298. [PMID: 24323940 DOI: 10.1002/smll.201303166] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/03/2013] [Revised: 10/31/2013] [Indexed: 06/03/2023]
Abstract
Core-shell colloidal crystals can act as very efficient traps for light and analytes. Here it is shown that Raman-active probes can be achieved using SiO2-TiO2 core-shell beads. These systems are successfully tested in monitoring of glutathione redox cycle at physiological concentration in aqueous environment, without need of any interfering enhancers. These materials represent a promising alternative to conventional, metal-based SERS probes for investigating chemical and biochemical reactions under real working conditions.
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Affiliation(s)
- Ivano Alessandri
- INSTM and Chemistry for Technologies Lab, University of Brescia, via Branze 38, 25123, Brescia, ITALY
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37
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Hassan S, Schade M, Shaw CP, Lévy R, Hamm P. Response of villin headpiece-capped gold nanoparticles to ultrafast laser heating. J Phys Chem B 2014; 118:7954-62. [PMID: 24597838 DOI: 10.1021/jp500845f] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
The integrity of a small model protein, the 36-residue villin headpiece HP36, attached to gold nanoparticles (AuNP) is examined, and its response to laser excitation of the AuNPs is investigated. To that end, it is first verified by stationary IR and CD spectroscopy, together with denaturation experiments, that the folded structure of the protein is fully preserved when attached to the AuNP surface. It is then shown by time-resolved IR spectroscopy that the protein does not unfold, even upon the highest pump fluences that lead to local temperature jumps on the order of 1000 K of the phonon system of the AuNPs, since that temperature jump persists for too short a time of a few nanoseconds only to be destructive. Judged from a blue shift of the amide I band, indicating destabilized or a few broken hydrogen bonds, the protein either swells, becomes more unstructured from the termini, or changes its degree of solvation. In any case, it recovers immediately after the excess energy dissipates into the bulk solvent. The process is entirely reversible for millions of laser shots without any indication of aggregation of the protein or the AuNPs and with only a minor fraction of broken protein-AuNP thiol bonds. The work provides important cornerstones in designing laser pulse parameters for maximal heating with protein-capped AuNPs without destroying the capping layer.
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Affiliation(s)
- Shabir Hassan
- Department of Chemistry, University of Zurich , Zurich, Switzerland
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38
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Dorj B, Won JE, Purevdorj O, Patel KD, Kim JH, Lee EJ, Kim HW. A novel therapeutic design of microporous-structured biopolymer scaffolds for drug loading and delivery. Acta Biomater 2014; 10:1238-50. [PMID: 24239677 DOI: 10.1016/j.actbio.2013.11.002] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2013] [Revised: 11/05/2013] [Accepted: 11/06/2013] [Indexed: 02/07/2023]
Abstract
Three-dimensional (3-D) open-channeled scaffolds of biopolymers are a promising candidate matrix for tissue engineering. When scaffolds have the capacity to deliver bioactive molecules the potential for tissue regeneration should be greatly enhanced. In order to improve drug-delivery capacity, we exploit 3-D poly(lactic acid) (PLA) scaffolds by creating microporosity within the scaffold network. Macroporous channeled PLA with a controlled pore configuration was obtained by a robotic dispensing technique. In particular, a room temperature ionic liquid (RTIL) bearing hydrophilic counter-anions, such as OTf and Cl, was introduced to the biopolymer solution at varying ratios. The RTIL-biopolymer slurry was homogenized by ultrasonication, and then solidified through the robotic dispensing process, during which the biopolymer and RTIL formed a bicontinuous interpenetrating network. After ethanol wash-out treatment the RTIL was completely removed to leave highly microporous open channels throughout the PLA network. The resultant pore size was observed to be a few micrometers (average 2.43 μm) and microporosity was determined to be ∼ 70%. The microporous surface was also shown to favor initial cell adhesion, stimulating cell anchorage on the microporous structure. Furthermore, in vivo tissue responses assessed in rat subcutaneous tissue revealed good tissue compatibility, with minimal inflammatory reactions, while gathering a larger population of fibroblastic cells than the non-microporous scaffolds, and even facilitating invasion of the cells within the microporous structure. The efficacy of the micropore networks generated within the 3-D scaffolds in loading and releasing therapeutic molecules was addressed using antibiotic sodium ampicillin and protein cytochrome C as model drugs. The microporous scaffolds exhibited significantly enhanced drug loading capacity: 4-5 times increase in ampicillin and 9-10 times increase in cytochrome C compared to the non-microporous scaffolds. The release of ampicillin loaded within the microporous scaffolds was initially fast (∼ 85% for 1 week), and was then slowed down, showing a continual release up to a month. On the other hand, cytochrome C was shown to release in a highly sustainable manner over a month, without showing an initial burst release effect. This study provides a novel insight into the generation of 3-D biopolymer scaffolds with high performance in loading and delivery of biomolecules, facilitated by the creation of microporous channels through the scaffold network. The capacity to support tissue cells while in situ delivering drug molecules makes the current scaffolds potentially useful for therapeutic tissue engineering.
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39
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Chaudhary A, Gupta A, Khan S, Nandi CK. Morphological effect of gold nanoparticles on the adsorption of bovine serum albumin. Phys Chem Chem Phys 2014; 16:20471-82. [DOI: 10.1039/c4cp01515k] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
The role of morphology and surface chemistry of gold nanoparticles in the adsorption of bovine serum albumin.
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Affiliation(s)
- Abhishek Chaudhary
- School of Basic Sciences
- Indian Institute of Technology Mandi
- Himachal Pradesh, India-175001
| | - Abhishek Gupta
- School of Basic Sciences
- Indian Institute of Technology Mandi
- Himachal Pradesh, India-175001
| | - Syamantak Khan
- School of Basic Sciences
- Indian Institute of Technology Mandi
- Himachal Pradesh, India-175001
| | - Chayan Kanti Nandi
- School of Basic Sciences
- Indian Institute of Technology Mandi
- Himachal Pradesh, India-175001
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40
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Langille MR, Personick ML, Mirkin CA. Plasmon-Mediated Syntheses of Metallic Nanostructures. Angew Chem Int Ed Engl 2013; 52:13910-40. [DOI: 10.1002/anie.201301875] [Citation(s) in RCA: 158] [Impact Index Per Article: 14.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2013] [Indexed: 12/20/2022]
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41
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Langille MR, Personick ML, Mirkin CA. Plasmonische Synthese von metallischen Nanostrukturen. Angew Chem Int Ed Engl 2013. [DOI: 10.1002/ange.201301875] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
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42
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Mout R, Rotello VM. Bio and Nano Working Together: Engineering the Protein-Nanoparticle Interface. Isr J Chem 2013. [DOI: 10.1002/ijch.201300026] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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43
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Personick ML, Langille MR, Wu J, Mirkin CA. Synthesis of Gold Hexagonal Bipyramids Directed by Planar-Twinned Silver Triangular Nanoprisms. J Am Chem Soc 2013; 135:3800-3. [DOI: 10.1021/ja400794q] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Affiliation(s)
- Michelle L. Personick
- Department of Chemistry, Department of Materials Science
and Engineering, and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston,
Illinois 60208, United States
| | - Mark R. Langille
- Department of Chemistry, Department of Materials Science
and Engineering, and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston,
Illinois 60208, United States
| | - Jinsong Wu
- Department of Chemistry, Department of Materials Science
and Engineering, and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston,
Illinois 60208, United States
| | - Chad A. Mirkin
- Department of Chemistry, Department of Materials Science
and Engineering, and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston,
Illinois 60208, United States
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44
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45
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Heinecke CL, Ackerson CJ. Preparation of gold nanocluster bioconjugates for electron microscopy. Methods Mol Biol 2013; 950:293-311. [PMID: 23086882 DOI: 10.1007/978-1-62703-137-0_17] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
In this chapter, we describe types of gold nanoparticle-biomolecule conjugates and their use in electron microscopy. Included are two detailed protocols for labeling an IgG antibody with gold monolayer protected clusters. The first approach is a direct bonding approach that utilizes the ligand place exchange reaction. The second approach describes NHS-EDC coupling of Au(144)(pMBA)(60) with IgG. Also included are various characterization techniques for determining labeling efficiency.
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46
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Immobilization ofα-Chymotrypsin on the Surface of Magnetic/Gold Core/Shell Nanoparticles. JOURNAL OF NANOTECHNOLOGY 2013. [DOI: 10.1155/2013/830151] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Over the last decade, nanoparticles used as protein carriers have opened new avenues for a variety of biomedical applications. The main concern for these applications is changes in biological activity of immobilized proteins due to conformational changes on the surface of the carrier. To evaluate this concern, the preparation and biocatalyst activity ofα-chymotrypsin-Fe3O4@ Au core/shell nanoparticles were investigated. First, Fe3O4@ Au core/shell nanoparticles were synthesized by coprecipitation method and citrate reduction of HAuCl4. TEM imaging revealed a core size of 13 ± 3 nm and a shell thickness of 4 ± 1 nm for synthesized nanoparticles. X-ray diffraction (XRD) was used to study the crystalline structure of the nanoparticles. Next, the enzyme was immobilized on the surface of synthesized nanoparticles by covalent bonding of Au shell with thiol and amine groups present in the protein structure (e.g., cysteine and histidine residues). FTIR and fluorescence spectroscopy were utilized to study secondary and tertiary structures of the immobilized enzyme. Results show that the secondary and tertiary structures of the enzyme remain virtually unchanged after immobilization on the nanoparticles surface. However, the biocatalyst activity of the enzyme was reduced by thirty percent, indicating possible conformational changes or active site occlusion.
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47
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Abstract
Nanoparticle-protein conjugates hold great promise in biomedical applications. Diverse strategies have been developed to link nanoparticles to proteins. This chapter describes a method to assemble and purify nanoparticle-protein conjugates. First, stable and biocompatible 1.5 nm gold nanoparticles are synthesized. Conjugation of the nanoparticle to the protein is then achieved via two different approaches that do not require heavy chemical modifications or cloning: cysteine-gold covalent bonding, or electrostatic attachment of the nanoparticle to charged groups of the protein. Co-functionalization of the nanoparticle with PEG thiols is recommended to help protein folding. Finally, structural characterization is performed with circular dichroism, as this spectroscopy technique has proven to be effective at examining protein secondary structure in nanoparticle-protein conjugates.
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48
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Brancolini G, Kokh DB, Calzolai L, Wade RC, Corni S. Docking of ubiquitin to gold nanoparticles. ACS NANO 2012; 6:9863-78. [PMID: 23033917 DOI: 10.1021/nn303444b] [Citation(s) in RCA: 79] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
Protein-nanoparticle associations have important applications in nanoscience and nanotechnology such as targeted drug delivery and theranostics. However, the mechanisms by which proteins recognize nanoparticles and the determinants of specificity are still poorly understood at the microscopic level. Gold is a promising material in nanoparticles for nanobiotechnology applications because of the ease of its functionalization and its tunable optical properties. Ubiquitin is a small, cysteine-free protein (ubiquitous in eukaryotes) whose binding to gold nanoparticles has been characterized recently by nuclear magnetic resonance (NMR). To reveal the molecular basis of these protein-nanoparticle interactions, we performed simulations at multiple levels (ab initio quantum mechanics, classical molecular dynamics and Brownian dynamics) and compared the results with experimental data (circular dichroism and NMR). The results provide a model of the ensemble of structures constituting the ubiquitin-gold surface complex, and insights into the driving forces for the binding of ubiquitin to gold nanoparticles, the role of nanoparticle surfactants (citrate) in the association process, and the origin of the perturbations in the NMR chemical shifts.
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Affiliation(s)
- Giorgia Brancolini
- Center S3, CNR Institute Nanoscience, Via Campi 213/A, 41125 Modena, Italy.
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49
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Langille MR, Personick ML, Zhang J, Mirkin CA. Defining Rules for the Shape Evolution of Gold Nanoparticles. J Am Chem Soc 2012; 134:14542-54. [DOI: 10.1021/ja305245g] [Citation(s) in RCA: 535] [Impact Index Per Article: 44.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Mark R. Langille
- Department of Chemistry and International Institute
for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
| | - Michelle L. Personick
- Department of Chemistry and International Institute
for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
| | - Jian Zhang
- Department of Chemistry and International Institute
for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
| | - Chad A. Mirkin
- Department of Chemistry and International Institute
for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
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Federici S, Oliviero G, Maiolo D, Depero LE, Colombo I, Bergese P. On the thermodynamics of biomolecule surface transformations. J Colloid Interface Sci 2012; 375:1-11. [DOI: 10.1016/j.jcis.2012.02.013] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2011] [Revised: 02/03/2012] [Accepted: 02/04/2012] [Indexed: 02/06/2023]
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