1
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Anaya-Plaza E, Özdemir Z, Wimmer Z, Kostiainen MA. Hierarchical peroxiredoxin assembly through orthogonal pH-response and electrostatic interactions. J Mater Chem B 2023; 11:11544-11551. [PMID: 37990925 DOI: 10.1039/d3tb00369h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2023]
Abstract
Morpheeins are proteins that adapt their morphology and function to the environment. Therefore, their use in nanotechnology opens up the bottom-up preparation of anisotropic metamaterials, based on the sequential use of different stimuli. A prominent member of this family of proteins is peroxiredoxins (Prx), with dual peroxidase and chaperone function, depending on the pH of the media. At high pH, they show a toroidal morphology that turns into tubular stacks upon acidification. While the toroidal conformers have been explored as building blocks to yield 1D and 2D structures, the obtention of higher ordered materials remain unexplored. In this research, the morpheein behaviour of Prx is exploited to yield columnar aggregates, that are subsequently self-assembled into 3D anisotropic bundles. This is achieved by electrostatic recognition between the negatively charged protein rim and a positively charged porphyrin acting as molecular glue. The subsequent and orthogonal input lead to the alignment of the monodimensional stacks side-by-side, leading to the precise assembly of this anisotropic materials.
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Affiliation(s)
- Eduardo Anaya-Plaza
- Department of Bioproducts and Biosystems, School of Chemical Engineering, Aalto University, Kemistintie 1, Finland.
| | - Zulal Özdemir
- Department of Chemistry of Natural Compounds, University of Chemistry and Technology in Prague, Technická 5, 16628 Prague 6, Czech Republic
| | - Zdenek Wimmer
- Department of Chemistry of Natural Compounds, University of Chemistry and Technology in Prague, Technická 5, 16628 Prague 6, Czech Republic
| | - Mauri A Kostiainen
- Department of Bioproducts and Biosystems, School of Chemical Engineering, Aalto University, Kemistintie 1, Finland.
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2
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Fata F, Gabriele F, Angelucci F, Ippoliti R, Di Leandro L, Giansanti F, Ardini M. Bio-Tailored Sensing at the Nanoscale: Biochemical Aspects and Applications. SENSORS (BASEL, SWITZERLAND) 2023; 23:s23020949. [PMID: 36679744 PMCID: PMC9866807 DOI: 10.3390/s23020949] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2022] [Revised: 01/04/2023] [Accepted: 01/09/2023] [Indexed: 06/01/2023]
Abstract
The demonstration of the first enzyme-based electrode to detect glucose, published in 1967 by S. J. Updike and G. P. Hicks, kicked off huge efforts in building sensors where biomolecules are exploited as native or modified to achieve new or improved sensing performances. In this growing area, bionanotechnology has become prominent in demonstrating how nanomaterials can be tailored into responsive nanostructures using biomolecules and integrated into sensors to detect different analytes, e.g., biomarkers, antibiotics, toxins and organic compounds as well as whole cells and microorganisms with very high sensitivity. Accounting for the natural affinity between biomolecules and almost every type of nanomaterials and taking advantage of well-known crosslinking strategies to stabilize the resulting hybrid nanostructures, biosensors with broad applications and with unprecedented low detection limits have been realized. This review depicts a comprehensive collection of the most recent biochemical and biophysical strategies for building hybrid devices based on bioconjugated nanomaterials and their applications in label-free detection for diagnostics, food and environmental analysis.
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3
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Zhu J, Avakyan N, Kakkis AA, Hoffnagle AM, Han K, Li Y, Zhang Z, Choi TS, Na Y, Yu CJ, Tezcan FA. Protein Assembly by Design. Chem Rev 2021; 121:13701-13796. [PMID: 34405992 PMCID: PMC9148388 DOI: 10.1021/acs.chemrev.1c00308] [Citation(s) in RCA: 100] [Impact Index Per Article: 33.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Proteins are nature's primary building blocks for the construction of sophisticated molecular machines and dynamic materials, ranging from protein complexes such as photosystem II and nitrogenase that drive biogeochemical cycles to cytoskeletal assemblies and muscle fibers for motion. Such natural systems have inspired extensive efforts in the rational design of artificial protein assemblies in the last two decades. As molecular building blocks, proteins are highly complex, in terms of both their three-dimensional structures and chemical compositions. To enable control over the self-assembly of such complex molecules, scientists have devised many creative strategies by combining tools and principles of experimental and computational biophysics, supramolecular chemistry, inorganic chemistry, materials science, and polymer chemistry, among others. Owing to these innovative strategies, what started as a purely structure-building exercise two decades ago has, in short order, led to artificial protein assemblies with unprecedented structures and functions and protein-based materials with unusual properties. Our goal in this review is to give an overview of this exciting and highly interdisciplinary area of research, first outlining the design strategies and tools that have been devised for controlling protein self-assembly, then describing the diverse structures of artificial protein assemblies, and finally highlighting the emergent properties and functions of these assemblies.
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Affiliation(s)
| | | | - Albert A. Kakkis
- Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093-0340, United States
| | - Alexander M. Hoffnagle
- Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093-0340, United States
| | - Kenneth Han
- Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093-0340, United States
| | - Yiying Li
- Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093-0340, United States
| | - Zhiyin Zhang
- Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093-0340, United States
| | - Tae Su Choi
- Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093-0340, United States
| | - Youjeong Na
- Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093-0340, United States
| | - Chung-Jui Yu
- Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093-0340, United States
| | - F. Akif Tezcan
- Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093-0340, United States
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4
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Generalova AN, Oleinikov VA, Khaydukov EV. One-dimensional necklace-like assemblies of inorganic nanoparticles: Recent advances in design, preparation and applications. Adv Colloid Interface Sci 2021; 297:102543. [PMID: 34678536 DOI: 10.1016/j.cis.2021.102543] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2021] [Revised: 10/07/2021] [Accepted: 10/08/2021] [Indexed: 01/12/2023]
Abstract
One-dimensional (1D) necklace-like assembly of inorganic nanoparticles exhibits unique collective properties, which are critical to open up new and remarkable opportunities in the field of nanotechnology. This review focuses on the recent advances in the production of these types of assemblies employing two strategies: colloidal synthesis and self-assembly procedures. After a brief description of the forces guiding nanoparticles towards the assembly, the main features of both strategies are discussed. Examples of approaches, typically involved in colloidal synthesis, are highlighted. The peculiar properties of 1D nanostructures are strictly associated with the nanoparticle arrangement in the form of highly ordered assemblies, which are attained during the synthesis both in the solution and using a template, as well as under the action of an external force. The various 1D necklace-like structures, created through nanoparticle self-assembly, demonstrate aligned, oriented nanoparticle organization. Diverse nature, size and shape of preformed particles as building blocks, along with utilizing different linkers, templates or external field lead to fabrication of 1D chain nanostructures with properties responsible for their wide applications. The unique structure-property relationship, both in colloidal synthesis, and self-assembly, offers broad spectrum of 1D necklace-like nanostructure implementations, illustrated by their use in photonics, electronics, electrocatalysis, magnetics.
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5
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Pushpavanam K, Ma J, Cai Y, Naser NY, Baneyx F. Solid-Binding Proteins: Bridging Synthesis, Assembly, and Function in Hybrid and Hierarchical Materials Fabrication. Annu Rev Chem Biomol Eng 2021; 12:333-357. [PMID: 33852353 DOI: 10.1146/annurev-chembioeng-102020-015923] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
There is considerable interest in the development of hybrid organic-inorganic materials because of the potential for harvesting the unique capabilities that each system has to offer. Proteins are an especially attractive organic component owing to the high amount of chemical information encoded in their amino acid sequence, their amenability to molecular and computational (re)design, and the many structures and functions they specify. Genetic installation of solid-binding peptides (SBPs) within protein frameworks affords control over the position and orientation of adhesive and morphogenetic segments, and a path toward predictive synthesis and assembly of functional materials and devices, all while harnessing the built-in properties of the host scaffold. Here, we review the current understanding of the mechanisms through which SBPs bind to technologically relevant interfaces, with an emphasis on the variables that influence the process, and highlight the last decade of progress in the use of solid-binding proteins for hybrid and hierarchical materials synthesis.
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Affiliation(s)
- Karthik Pushpavanam
- Department of Chemical Engineering, University of Washington, Seattle, Washington 98115, USA;
| | - Jinrong Ma
- Molecular Engineering and Sciences Institute, University of Washington, Seattle, Washington 98115, USA
| | - Yifeng Cai
- Department of Chemical Engineering, University of Washington, Seattle, Washington 98115, USA;
| | - Nada Y Naser
- Department of Chemical Engineering, University of Washington, Seattle, Washington 98115, USA;
| | - François Baneyx
- Department of Chemical Engineering, University of Washington, Seattle, Washington 98115, USA; .,Molecular Engineering and Sciences Institute, University of Washington, Seattle, Washington 98115, USA
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6
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Ardini M, Bellelli A, Williams DL, Di Leandro L, Giansanti F, Cimini A, Ippoliti R, Angelucci F. Taking Advantage of the Morpheein Behavior of Peroxiredoxin in Bionanotechnology. Bioconjug Chem 2021; 32:43-62. [PMID: 33411522 PMCID: PMC8023583 DOI: 10.1021/acs.bioconjchem.0c00621] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
![]()
Morpheeins
are proteins that reversibly assemble into different
oligomers, whose architectures are governed by conformational changes
of the subunits. This property could be utilized in bionanotechnology
where the building of nanometric and new high-ordered structures is
required. By capitalizing on the adaptability of morpheeins to create
patterned structures and exploiting their inborn affinity toward inorganic
and living matter, “bottom-up” creation of nanostructures
could be achieved using a single protein building block, which may
be useful as such or as scaffolds for more complex materials. Peroxiredoxins
represent the paradigm of a morpheein that can be applied to bionanotechnology.
This review describes the structural and functional transitions that
peroxiredoxins undergo to form high-order oligomers, e.g., rings,
tubes, particles, and catenanes, and reports on the chemical and genetic
engineering approaches to employ them in the generation of responsive
nanostructures and nanodevices. The usefulness of the morpheeins’
behavior is emphasized, supporting their use in future applications.
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Affiliation(s)
- Matteo Ardini
- Department of Life, Health, and Environmental Sciences, University of L'Aquila, Piazzale Salvatore Tommasi 1, 67100 L'Aquila, Italy
| | - Andrea Bellelli
- Department of Biochemical Sciences "A. Rossi Fanelli", University of Roma "Sapienza", Piazzale Aldo Moro 5, 00185 Roma, Italy
| | - David L Williams
- Department of Microbial Pathogens and Immunity, Rush University Medical Center, Chicago, Illinois 60612, United States
| | - Luana Di Leandro
- Department of Life, Health, and Environmental Sciences, University of L'Aquila, Piazzale Salvatore Tommasi 1, 67100 L'Aquila, Italy
| | - Francesco Giansanti
- Department of Life, Health, and Environmental Sciences, University of L'Aquila, Piazzale Salvatore Tommasi 1, 67100 L'Aquila, Italy
| | - Annamaria Cimini
- Department of Life, Health, and Environmental Sciences, University of L'Aquila, Piazzale Salvatore Tommasi 1, 67100 L'Aquila, Italy
| | - Rodolfo Ippoliti
- Department of Life, Health, and Environmental Sciences, University of L'Aquila, Piazzale Salvatore Tommasi 1, 67100 L'Aquila, Italy
| | - Francesco Angelucci
- Department of Life, Health, and Environmental Sciences, University of L'Aquila, Piazzale Salvatore Tommasi 1, 67100 L'Aquila, Italy
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7
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Su J, Huang X, Yang M. Self‐Limiting Assembly of Au Nanoparticles Induced by Localized Dynamic Metal‐Phenolic Interactions. Eur J Inorg Chem 2020. [DOI: 10.1002/ejic.202000842] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Jiaojiao Su
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology 150001 Harbin P. R. China
| | - Xin Huang
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology 150001 Harbin P. R. China
| | - Ming Yang
- Key Laboratory of Microsystems and Micronanostructrues Manufacturing Harbin Institute of Technology 2 Yikuang Street 150080 Harbin P. R. China
- State Key Laboratory of Inorganic Synthesis and Preparative Chemistry Jilin University 130012 Changchun P. R. China
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8
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A ring-shaped protein clusters gold nanoparticles acting as molecular scaffold for plasmonic surfaces. Biochim Biophys Acta Gen Subj 2020; 1864:129617. [DOI: 10.1016/j.bbagen.2020.129617] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2020] [Revised: 04/09/2020] [Accepted: 04/12/2020] [Indexed: 12/18/2022]
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9
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Abstract
Protein nanotechnology research is at the intersection of protein biology and nanotechnology. Protein molecules are repurposed as nanostructures and nanoscaffolds, and nanoscale tools are used to investigate protein assembly and function. In this chapter, a select review is given of some of the recent examples of protein nanostructures, covering both those directly borrowed from biology and those designed for use in nanotechnology. It updates the introductory chapter to Edition 2 of this volume to reflect significant progress in this field. Some strategies to incorporate protein structures into devices are also covered, with the successes and challenges of this interdisciplinary field identified. This provides an overarching framework for the rest of the volume, which details the case studies of some of the protein building blocks that have been designed and produced, along with tips and tools for their incorporation into devices and making functional measurements.
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10
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Abstract
Peroxiredoxins are ubiquitous antioxidant proteins that exhibit a striking variety of quaternary structures, making them appealing building blocks with which nanoscale architectures are created for applications in nanotechnology. The solution environment of the protein, as well as protein sequence, influences the presentation of a particular structure, thereby enabling mesoscopic manipulations that affect arrangments at the nanoscale. This chapter will equip us with the knowledge necessary to not only produce and manipulate peroxiredoxin proteins into desired structures but also to characterize the different structures using dynamic light scattering, analytical centrifugation, and negative stain transmission electron microscopy, thereby setting the stage for us to use these proteins for applications in nanotechnology.
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Affiliation(s)
- Frankie Conroy
- School of Biological Sciences, University of Auckland, Auckland, New Zealand
| | - N Amy Yewdall
- Bio-Organic Chemistry, Eindhoven University of Technology, Eindhoven, The Netherlands.
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11
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Korpi A, Anaya-Plaza E, Välimäki S, Kostiainen M. Highly ordered protein cage assemblies: A toolkit for new materials. WILEY INTERDISCIPLINARY REVIEWS-NANOMEDICINE AND NANOBIOTECHNOLOGY 2019; 12:e1578. [PMID: 31414574 DOI: 10.1002/wnan.1578] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/18/2019] [Revised: 06/19/2019] [Accepted: 06/28/2019] [Indexed: 12/16/2022]
Abstract
Protein capsids are specialized and versatile natural macromolecules with exceptional properties. Their homogenous, spherical, rod-like or toroidal geometry, and spatially directed functionalities make them intriguing building blocks for self-assembled nanostructures. High degrees of functionality and modifiability allow for their assembly via non-covalent interactions, such as electrostatic and coordination bonding, enabling controlled self-assembly into higher-order structures. These assembly processes are sensitive to the molecules used and the surrounding conditions, making it possible to tune the chemical and physical properties of the resultant material and generate multifunctional and environmentally sensitive systems. These materials have numerous potential applications, including catalysis and drug delivery. This article is categorized under: Biology-Inspired Nanomaterials > Protein and Virus-Based Structures.
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Affiliation(s)
- Antti Korpi
- Biohybrid Materials, Department of Bioproducts and Biosystems, Aalto University, Aalto, Finland
| | - Eduardo Anaya-Plaza
- Biohybrid Materials, Department of Bioproducts and Biosystems, Aalto University, Aalto, Finland
| | - Salla Välimäki
- Biohybrid Materials, Department of Bioproducts and Biosystems, Aalto University, Aalto, Finland
| | - Mauri Kostiainen
- Biohybrid Materials, Department of Bioproducts and Biosystems, Aalto University, Aalto, Finland
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12
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Conroy F, Rossi T, Ashmead H, Crowther JM, Mitra AK, Gerrard JA. Engineering peroxiredoxin 3 to facilitate control over self-assembly. Biochem Biophys Res Commun 2019; 512:263-268. [PMID: 30885432 DOI: 10.1016/j.bbrc.2019.03.032] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2019] [Accepted: 03/06/2019] [Indexed: 12/11/2022]
Abstract
Oligomeric proteins are abundant in nature and are useful for a range of nanotechnological applications; however, a key requirement in using these proteins is controlling when and how they form oligomeric assemblies. Often, protein oligomerisation is triggered by various cellular signals, allowing for controllable oligomerisation. An example of this is human peroxiredoxin 3 (Prx), a stable protein that natively forms dimers, dodecameric rings, stacks, and tubes in response to a range of environmental stimuli. Although we know the key environmental stimuli for switching between different oligomeric states of Prx, we still have limited molecular knowledge and control over the formation and size of the protein's stacks and tubes. Here, we have generated a range of Prx mutants with either a decreased or knocked out ability to stack, and used both imaging and solution studies to show that Prx stacks through electrostatic interactions that are stabilised by a hydrogen bonding network. Furthermore, we show that altering the length of the polyhistidine tag will alter the length of the Prx stacks, with longer polyhistidine tags giving longer stacks. Finally, we have analysed the effect a variety of heavy metals have on the oligomeric state of Prx, wherein small transition metals like nickel enhances Prx stacking, while larger positively charged metals like tungstate ions can prevent Prx stacking. This work provides further structural characterisation of Prx, to enhance its use as a platform from which to build protein nanostructures for a variety of applications.
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Affiliation(s)
- Frankie Conroy
- School of Biological Sciences, University of Auckland, Auckland, 1010, New Zealand.
| | - Tatiana Rossi
- School of Biological Sciences, University of Auckland, Auckland, 1010, New Zealand
| | - Helen Ashmead
- School of Biological Sciences, University of Auckland, Auckland, 1010, New Zealand; Biomolecular Interaction Centre and School of Biological Sciences, University of Canterbury, Christchurch, 8011, New Zealand
| | - Jennifer M Crowther
- Biomolecular Interaction Centre and School of Biological Sciences, University of Canterbury, Christchurch, 8011, New Zealand
| | - Alok K Mitra
- School of Biological Sciences, University of Auckland, Auckland, 1010, New Zealand
| | - Juliet A Gerrard
- School of Biological Sciences, University of Auckland, Auckland, 1010, New Zealand.
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13
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Chen L, Su B, Jiang L. Recent advances in one-dimensional assembly of nanoparticles. Chem Soc Rev 2019; 48:8-21. [PMID: 30444250 DOI: 10.1039/c8cs00703a] [Citation(s) in RCA: 47] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Compared with 2D or 3D assembly models, 1D assembly of functional nanoparticles (NPs) is more difficult to prepare due to its higher surface energy. Despite the fabrication difficulty, 1D assembly of NPs exhibits many unique properties, and can directionally transport excitons, photons, phonons, etc., which generate great interest in considerable applications in biomedicine, data storage, waveguiding, highly sensitive sensors, color displays, microcircuits and others. The unique features of 1D assembly of NPs can bridge fabrication of NPs with their practical device applications. The aim of this Tutorial Review is to introduce the general mechanisms to assemble NPs in one direction. To achieve 1D assembly of NPs, different kinds of traditional and newly developed assembly strategies will be discussed. Finally, some examples will be demonstrated to illustrate the applications of NP 1D assemblies in the fields of optics, electronics and magnetics.
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Affiliation(s)
- Linfeng Chen
- State Key Laboratory of Material Processing and Die & Mould Technology, School of Materials Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074, P. R. China.
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14
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Catanesi M, Panella G, Benedetti E, Fioravanti G, Perrozzi F, Ottaviano L, Leandro LD, Ardini M, Giansanti F, d'Angelo M, Castelli V, Angelucci F, Ippoliti R, Cimini A. YAP/TAZ mechano-transduction as the underlying mechanism of neuronal differentiation induced by reduced graphene oxide. Nanomedicine (Lond) 2018; 13:3091-3106. [PMID: 30451074 DOI: 10.2217/nnm-2018-0269] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
AIM The aim of this work is the dissection of the molecular pathways underlying the differentiation effect of reduced graphene oxide (GO) materials in the absence of differentiation agents. MATERIALS & METHODS Reduced GO is obtained either by drop casting method and heat-treated or biological reduction by the interaction between GO and wtPrxI. Cells were grown on both materials and the differentiation process studied by immunological and morphological detection. RESULTS & CONCLUSION The results obtained indicate that both reduction methods of GO can determine the modulation of pathway involved in mechano-transduction and differentiation, by affecting YAP/TAZ localization outside the nuclei and increasing neuronal differentiation markers. This suggests that the mechano-transduction pathways are responsible for the differentiation process.
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Affiliation(s)
- M Catanesi
- Department of Life, Health & Environmental Sciences, University of L'Aquila, L'Aquila Italy
| | - G Panella
- Department of Life, Health & Environmental Sciences, University of L'Aquila, L'Aquila Italy
| | - E Benedetti
- Department of Life, Health & Environmental Sciences, University of L'Aquila, L'Aquila Italy
| | - G Fioravanti
- Department of Physical & Chemical Sciences, University of L'Aquila, L'Aquila Italy
| | - F Perrozzi
- Department of Physical & Chemical Sciences, University of L'Aquila, L'Aquila Italy
| | - L Ottaviano
- Department of Physical & Chemical Sciences, University of L'Aquila, L'Aquila Italy
| | - L Di Leandro
- Department of Life, Health & Environmental Sciences, University of L'Aquila, L'Aquila Italy
| | - M Ardini
- Department of Life, Health & Environmental Sciences, University of L'Aquila, L'Aquila Italy
| | - F Giansanti
- Department of Life, Health & Environmental Sciences, University of L'Aquila, L'Aquila Italy
| | - M d'Angelo
- Department of Life, Health & Environmental Sciences, University of L'Aquila, L'Aquila Italy
| | - V Castelli
- Department of Life, Health & Environmental Sciences, University of L'Aquila, L'Aquila Italy
| | - F Angelucci
- Department of Life, Health & Environmental Sciences, University of L'Aquila, L'Aquila Italy
| | - R Ippoliti
- Department of Life, Health & Environmental Sciences, University of L'Aquila, L'Aquila Italy
| | - A Cimini
- Department of Life, Health & Environmental Sciences, University of L'Aquila, L'Aquila Italy.,Department of Biology, Sbarro Institute for Cancer Research & Molecular Medicine, Temple University, PA, USA
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15
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Manuguri S, Webster K, Yewdall NA, An Y, Venugopal H, Bhugra V, Turner A, Domigan LJ, Gerrard JA, Williams DE, Malmström J. Assembly of Protein Stacks With in Situ Synthesized Nanoparticle Cargo. NANO LETTERS 2018; 18:5138-5145. [PMID: 30047268 DOI: 10.1021/acs.nanolett.8b02055] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
The ability of proteins to form hierarchical structures through self-assembly provides an opportunity to synthesize and organize nanoparticles. Ordered nanoparticle assemblies are a subject of widespread interest due to the potential to harness their emergent functions. In this work, the toroidal-shaped form of the protein peroxiredoxin, which has a pore size of 7 nm, was used to organize iron oxyhydroxide nanoparticles. Iron in the form of Fe2+ was sequestered into the central cavity of the toroid ring using metal-binding sites engineered there and then hydrolyzed to form iron oxyhydroxide particles bound into the protein pore. By precise manipulation of the pH, the mineralized toroids were organized into stacks confining one-dimensional nanoparticle assemblies. We report the formation and the procedures leading to the formation of such nanostructures and their characterization by chromatography and microscopy. Electrostatic force microscopy clearly revealed the formation of iron-containing nanorods as a result of the self-assembly of the iron-loaded protein. This research bodes well for the use of peroxiredoxin as a template with which to form nanowires and structures for electronic and magnetic applications.
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Affiliation(s)
- Sesha Manuguri
- MacDiarmid Institute for Advanced Materials and Nanotechnology , 6140 Wellington , New Zealand
| | | | - N Amy Yewdall
- Biomolecular Interaction Centre and School of Biological Sciences , University of Canterbury , Christchurch 8140 , New Zealand
| | | | | | - Vaibhav Bhugra
- MacDiarmid Institute for Advanced Materials and Nanotechnology , 6140 Wellington , New Zealand
| | | | - Laura J Domigan
- MacDiarmid Institute for Advanced Materials and Nanotechnology , 6140 Wellington , New Zealand
| | - Juliet A Gerrard
- MacDiarmid Institute for Advanced Materials and Nanotechnology , 6140 Wellington , New Zealand
| | - David E Williams
- MacDiarmid Institute for Advanced Materials and Nanotechnology , 6140 Wellington , New Zealand
| | - Jenny Malmström
- MacDiarmid Institute for Advanced Materials and Nanotechnology , 6140 Wellington , New Zealand
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16
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Yewdall NA, Allison TM, Pearce FG, Robinson CV, Gerrard JA. Self-assembly of toroidal proteins explored using native mass spectrometry. Chem Sci 2018; 9:6099-6106. [PMID: 30090298 PMCID: PMC6053953 DOI: 10.1039/c8sc01379a] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2018] [Accepted: 06/15/2018] [Indexed: 12/13/2022] Open
Abstract
The peroxiredoxins are a well characterised family of toroidal proteins which can self-assemble into a striking array of quaternary structures, including protein nanotubes, making them attractive as building blocks for nanotechnology.
The peroxiredoxins are a well characterised family of toroidal proteins which can self-assemble into a striking array of quaternary structures, including protein nanotubes, making them attractive as building blocks for nanotechnology. Tools to characterise these assemblies are currently scarce. Here, assemblies of peroxiredoxin proteins were examined using native mass spectrometry and complementary solution techniques. We demonstrated unequivocally that tube formation is fully reversible, a useful feature in a molecular switch. Simple assembly of individual toroids was shown to be tunable by pH and the presence of a histidine tag. Collision induced dissociation experiments on peroxiredoxin rings revealed a highly unusual symmetrical disassembly pathway, consistent with the structure disassembling as a hexamer of dimers. This study provides the foundation for the rational design and precise characterisation of peroxiredoxin protein structures where self-assembly can be harnessed as a key feature for applications in nanotechnology.
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Affiliation(s)
- N Amy Yewdall
- School of Biological Sciences , School of Chemical Sciences , University of Auckland , Auckland 1010 , New Zealand.,Biomolecular Interaction Centre , School of Biological Sciences , University of Canterbury , Christchurch 8140 , New Zealand
| | - Timothy M Allison
- Department of Chemistry , University of Oxford , Oxford OX1 5QY , UK
| | - F Grant Pearce
- School of Biological Sciences , School of Chemical Sciences , University of Auckland , Auckland 1010 , New Zealand
| | - Carol V Robinson
- Department of Chemistry , University of Oxford , Oxford OX1 5QY , UK
| | - Juliet A Gerrard
- Biomolecular Interaction Centre , School of Biological Sciences , University of Canterbury , Christchurch 8140 , New Zealand.,MacDiarmid Institute for Advanced Materials and Nanotechnology , Victoria University , Wellington 6140 , New Zealand
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17
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Abstract
Recent research has highlighted the exciting possibilities enabled by the use of protein structures as nanocomponents to form functional nanodevices. To this end, control over protein-protein and protein-surface interactions is essential. In this study, the authors probe the interaction of human peroxiredoxin 3 with gold surfaces, a protein that has been previously identified as having potential use in nanotechnology. Analytical ultracentrifugation and transmission electron microscopy revealed the pH mediated assembly of protein toroids into tubular structures across a small pH range. Quartz crystal microbalance with dissipation measurements showed differences in absorbed protein mass when pH is switched from pH 8.0 to 7.2, in line with the formation of supramolecular structures observed in solution studies. Scanning tunneling microscopy under ambient conditions showed that these protein tubes form on surfaces in a concentration dependent manner, with a tendency for protein adsorption and supramolecular assembly at the edges of Au(111) terraces. Finally, self-assembled monolayer modification of Au surfaces was explored as a means to control the adsorption and orientation of pH triggered protein structures.
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18
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Yamada Y, Konno H, Shimabukuro K. Demonstration of correlative atomic force and transmission electron microscopy using actin cytoskeleton. Biophys Physicobiol 2017; 14:111-117. [PMID: 28828286 PMCID: PMC5551270 DOI: 10.2142/biophysico.14.0_111] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2016] [Accepted: 06/29/2017] [Indexed: 12/01/2022] Open
Abstract
In this study, we present a new technique called correlative atomic force and transmission electron microscopy (correlative AFM/TEM) in which a targeted region of a sample can be observed under AFM and TEM. The ultimate goal of developing this new technique is to provide a technical platform to expand the fields of AFM application to complex biological systems such as cell extracts. Recent advances in the time resolution of AFM have enabled detailed observation of the dynamic nature of biomolecules. However, specifying molecular species, by AFM alone, remains a challenge. Here, we demonstrate correlative AFM/TEM, using actin filaments as a test sample, and further show that immuno-electron microscopy (immuno-EM), to specify molecules, can be integrated into this technique. Therefore, it is now possible to specify molecules, captured under AFM, by subsequent observation using immuno-EM. In conclusion, correlative AFM/TEM can be a versatile method to investigate complex biological systems at the molecular level.
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Affiliation(s)
- Yutaro Yamada
- Department of Chemical and Biological Engineering, National College of Technology, Ube College, Ube, Yamaguchi 755-8555, Japan
| | - Hiroki Konno
- Bio-AFM Frontier Research Center, Kanazawa University, Kanazawa, Ishikawa 920-1192, Japan
| | - Katsuya Shimabukuro
- Department of Chemical and Biological Engineering, National College of Technology, Ube College, Ube, Yamaguchi 755-8555, Japan
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19
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Lian Z, Wang W, Li G, Tian F, Schanze KS, Li H. Pt-Enhanced Mesoporous Ti 3+/TiO 2 with Rapid Bulk to Surface Electron Transfer for Photocatalytic Hydrogen Evolution. ACS APPLIED MATERIALS & INTERFACES 2017; 9:16959-16966. [PMID: 28001032 DOI: 10.1021/acsami.6b11494] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
Pt-doped mesoporous Ti3+ self-doped TiO2 (Pt-Ti3+/TiO2) is in situ synthesized via an ionothermal route, by treating metallic Ti in an ionic liquid containing LiOAc, HOAc, and a H2PtCl6 aqueous solution under mild ionothermal conditions. Such Ti3+-enriched environment, as well as oxygen vacancies, is proven to be effective for allowing the in situ reduction of Pt4+ ions uniformly located in the framework of the TiO2 bulk. The photocatalytic H2 evolution of Pt-Ti3+/TiO2 is significantly higher than that of the photoreduced Pt loaded on the original TiO2 and commercial P25. Such greatly enhanced activity is due to the various valence states of Pt (Ptn+, n = 0, 2, or 3), forming Pt-O bonds embedded in the framework of TiO2 and ultrafine Pt metal nanoparticles on the surface of TiO2. Such Ptn+-O bonds could act as the bridges for facilitating the photogenerated electron transfer from the bulk to the surface of TiO2 with a higher electron carrier density (3.11 × 1020 cm-3), about 2.5 times that (1.25 × 1020 cm-3) of the photoreduced Pt-Ti3+/TiO2 sample. Thus, more photogenerated electrons could reach the Pt metal for reducing protons to H2.
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Affiliation(s)
- Zichao Lian
- Chinese Education Ministry Key Laboratory of Resource Chemistry, Shanghai Normal University , Shanghai 200234, China
| | - Wenchao Wang
- Chinese Education Ministry Key Laboratory of Resource Chemistry, Shanghai Normal University , Shanghai 200234, China
| | - Guisheng Li
- Chinese Education Ministry Key Laboratory of Resource Chemistry, Shanghai Normal University , Shanghai 200234, China
- Department of Chemistry, University of Florida , Gainesville, Florida 32611, United States
| | - Fenghui Tian
- Institute of Computational Science and Engineering, Qingdao University , Qingdao 266071, China
| | - Kirk S Schanze
- Department of Chemistry, University of Florida , Gainesville, Florida 32611, United States
| | - Hexing Li
- Chinese Education Ministry Key Laboratory of Resource Chemistry, Shanghai Normal University , Shanghai 200234, China
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20
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21
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Abstract
Peroxiredoxins (Prxs) are a large and conserved family of peroxidases that are considered to be the primary cellular guardians against oxidative stress in all living organisms. Prxs share a thioredoxin fold and contain a highly-reactive peroxidatic cysteine in a specialised active-site environment that is able to reduce their peroxide substrates. The minimal functional unit for Prxs are either monomers or dimers, but many dimers assemble into decameric rings. Ring structures can further form a variety of high molecular weight complexes. Many eukaryotic Prxs contain a conserved GGLG and C-terminal YF motif that confer sensitivity to elevated levels of peroxide, leading to hyperoxidation and inactivation. Inactive forms of Prxs can be re-reduced by the enzyme sulfiredoxin, in an ATP-dependent reaction. Cycles of hyperoxidation and reactivation are considered to play an integral role in a variety of H2O2-mediated cell signalling pathways in both stress and non-stress conditions. Prxs are also considered to exhibit chaperone-like properties when cells are under oxidative or thermal stress. The roles of various types of covalent modifications, e.g. acetylation and phosphorylation are also discussed. The ability of Prxs to assemble into ordered arrays such as nanotubes is currently being exploited in nanotechnology.
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Affiliation(s)
- Zhenbo Cao
- Institute of Molecular, Cell and Systems Biology, Davidson Building, College of Medicine, Veterinary and Life Sciences, University of Glasgow, Glasgow, G12 8QQ, UK
| | - John Gordon Lindsay
- Institute of Molecular, Cell and Systems Biology, Davidson Building, College of Medicine, Veterinary and Life Sciences, University of Glasgow, Glasgow, G12 8QQ, UK.
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22
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Ardini M, Golia G, Passaretti P, Cimini A, Pitari G, Giansanti F, Di Leandro L, Ottaviano L, Perrozzi F, Santucci S, Morandi V, Ortolani L, Christian M, Treossi E, Palermo V, Angelucci F, Ippoliti R. Supramolecular self-assembly of graphene oxide and metal nanoparticles into stacked multilayers by means of a multitasking protein ring. NANOSCALE 2016; 8:6739-6753. [PMID: 26952635 DOI: 10.1039/c5nr08632a] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Graphene oxide (GO) is rapidly emerging worldwide as a breakthrough precursor material for next-generation devices. However, this requires the transition of its two-dimensional layered structure into more accessible three-dimensional (3D) arrays. Peroxiredoxins (Prx) are a family of multitasking redox enzymes, self-assembling into ring-like architectures. Taking advantage of both their symmetric structure and function, 3D reduced GO-based composites are hereby built up. Results reveal that the "double-faced" Prx rings can adhere flat on single GO layers and partially reduce them by their sulfur-containing amino acids, driving their stacking into 3D multi-layer reduced GO-Prx composites. This process occurs in aqueous solution at a very low GO concentration, i.e. 0.2 mg ml(-1). Further, protein engineering allows the Prx ring to be enriched with metal binding sites inside its lumen. This feature is exploited to both capture presynthesized gold nanoparticles and grow in situ palladium nanoparticles paving the way to straightforward and "green" routes to 3D reduced GO-metal composite materials.
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Affiliation(s)
- Matteo Ardini
- Dept. of Life, Health and Environmental Sciences, University of L'Aquila, Italy.
| | - Giordana Golia
- Dept. of Life, Health and Environmental Sciences, University of L'Aquila, Italy.
| | - Paolo Passaretti
- Dept. of Life, Health and Environmental Sciences, University of L'Aquila, Italy.
| | - Annamaria Cimini
- Dept. of Life, Health and Environmental Sciences, University of L'Aquila, Italy.
| | - Giuseppina Pitari
- Dept. of Life, Health and Environmental Sciences, University of L'Aquila, Italy.
| | - Francesco Giansanti
- Dept. of Life, Health and Environmental Sciences, University of L'Aquila, Italy.
| | - Luana Di Leandro
- Dept. of Life, Health and Environmental Sciences, University of L'Aquila, Italy.
| | - Luca Ottaviano
- Dept. of Physics and Chemistry, University of L'Aquila, Italy
| | | | - Sandro Santucci
- Dept. of Physics and Chemistry, University of L'Aquila, Italy
| | - Vittorio Morandi
- National Research Council of Italy, Institute for Microelectronics and Microsystems, Bologna, Italy
| | - Luca Ortolani
- National Research Council of Italy, Institute for Microelectronics and Microsystems, Bologna, Italy
| | - Meganne Christian
- National Research Council of Italy, Institute for Microelectronics and Microsystems, Bologna, Italy and National Research Council of Italy, Institute for Organic Synthesis and Photoelectronics, Bologna, Italy
| | - Emanuele Treossi
- National Research Council of Italy, Institute for Organic Synthesis and Photoelectronics, Bologna, Italy
| | - Vincenzo Palermo
- National Research Council of Italy, Institute for Organic Synthesis and Photoelectronics, Bologna, Italy
| | - Francesco Angelucci
- Dept. of Life, Health and Environmental Sciences, University of L'Aquila, Italy.
| | - Rodolfo Ippoliti
- Dept. of Life, Health and Environmental Sciences, University of L'Aquila, Italy.
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23
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Cimini A, Ardini M, Gentile R, Giansanti F, Benedetti E, Cristiano L, Fidoamore A, Scotti S, Panella G, Angelucci F, Ippoliti R. A peroxiredoxin-based proteinaceous scaffold for the growth and differentiation of neuronal cells and tumour stem cells in the absence of prodifferentiation agents. J Tissue Eng Regen Med 2016; 11:2462-2470. [PMID: 29737636 DOI: 10.1002/term.2144] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2015] [Revised: 11/29/2015] [Accepted: 12/22/2015] [Indexed: 01/26/2023]
Abstract
The use of nanoscale materials in the design of scaffolds for CNS tissue is increasing, due to their ability to promote cell adhesion, to mimic an extracellular matrix microenvironment and to interact with neuronal membranes. In this framework, one of the major challenges when using undifferentiated neural cells is how to control the differentiation process. Here we report the characterization of a scaffold based on the self-assembled nanotubes of a mutant of the protein peroxiredoxin (from Schistosoma mansoni or Bos taurus), which allows the growth and differentiation of a model neuronal cell line (SHSY5Y). The results obtained demonstrate that SHSY5Y cells grow without any sign of toxicity and develop a neuronal phenotype, as shown by the expression of neuronal differentiation markers, without the use of any differentiation supplement, even in the presence of serum. The prodifferentiation effect is demonstrated to be dependent on the formation of the protein nanotube, since a wild-type (WT) form of the peroxiredoxin from Schistosoma mansoni does not induce any differentiation. The protein scaffold was also able to induce the spread of glioblastoma cancer stem cells growing in neurospheres and allowing the acquisition of a neuron-like morphology, as well as of immature rat cortical neurons. This protein used here as coating agent may be suggested for the development of scaffolds for tissue regeneration or anti-tumour devices. Copyright © 2016 John Wiley & Sons, Ltd.
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Affiliation(s)
- Annamaria Cimini
- Department of Life Health and Environmental Sciences, University of L'Aquila, L'Aquila, Italy.,Sbarro Institute for Cancer Research and Molecular Medicine and Center for Biotechnology, Temple University, Philadelphia, Pennsylvania, USA.,National Institute for Nuclear Physics (INFN), Gran Sasso National Laboratory (LNGS), Assergi, Italy
| | - Matteo Ardini
- Department of Life Health and Environmental Sciences, University of L'Aquila, L'Aquila, Italy
| | - Roberta Gentile
- Department of Life Health and Environmental Sciences, University of L'Aquila, L'Aquila, Italy
| | - Francesco Giansanti
- Department of Life Health and Environmental Sciences, University of L'Aquila, L'Aquila, Italy
| | - Elisabetta Benedetti
- Department of Life Health and Environmental Sciences, University of L'Aquila, L'Aquila, Italy
| | - Loredana Cristiano
- Department of Life Health and Environmental Sciences, University of L'Aquila, L'Aquila, Italy
| | - Alessia Fidoamore
- Department of Life Health and Environmental Sciences, University of L'Aquila, L'Aquila, Italy
| | - Stefano Scotti
- Department of Life Health and Environmental Sciences, University of L'Aquila, L'Aquila, Italy
| | - Gloria Panella
- Department of Life Health and Environmental Sciences, University of L'Aquila, L'Aquila, Italy
| | - Francesco Angelucci
- Department of Life Health and Environmental Sciences, University of L'Aquila, L'Aquila, Italy
| | - Rodolfo Ippoliti
- Department of Life Health and Environmental Sciences, University of L'Aquila, L'Aquila, Italy
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24
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Lewandowski W, Łojewska T, Szustakiewicz P, Mieczkowski J, Pociecha D. Reversible switching of structural and plasmonic properties of liquid-crystalline gold nanoparticle assemblies. NANOSCALE 2016; 8:2656-63. [PMID: 26758794 DOI: 10.1039/c5nr08406g] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
Hybrid materials built of spherical gold nanoparticles with three different sizes covered with (pro)mesogenic molecules have been prepared. Small-angle X-ray diffraction studies showed that after thermal annealing most of the obtained materials formed long-range ordered assemblies. Variation of the (pro)mesogenic ligand architecture enabled us to achieve a switchable material, which could be reversibly reconfigured between 3D long-range ordered structures with tetragonal and face centred cubic symmetries. This structural reconfiguration induces changes to the plasmonic response of the material. This work demonstrates that it is possible to use LC-based self-assembling phenomena to prepare dynamic materials with structural properties important for the development of active plasmonic metamaterials.
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Affiliation(s)
- W Lewandowski
- Faculty of Chemistry, University of Warsaw, 1 Pasteura st., 02-093 Warsaw, Poland.
| | - T Łojewska
- Faculty of Chemistry, University of Warsaw, 1 Pasteura st., 02-093 Warsaw, Poland.
| | - P Szustakiewicz
- Faculty of Chemistry, University of Warsaw, 1 Pasteura st., 02-093 Warsaw, Poland.
| | - J Mieczkowski
- Faculty of Chemistry, University of Warsaw, 1 Pasteura st., 02-093 Warsaw, Poland.
| | - D Pociecha
- Faculty of Chemistry, University of Warsaw, 1 Pasteura st., 02-093 Warsaw, Poland.
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25
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Malmström J, Wason A, Roache F, Yewdall NA, Radjainia M, Wei S, Higgins MJ, Williams DE, Gerrard JA, Travas-Sejdic J. Protein nanorings organized by poly(styrene-block-ethylene oxide) self-assembled thin films. NANOSCALE 2015; 7:19940-19948. [PMID: 26499391 DOI: 10.1039/c5nr05476a] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
This study explores the use of block copolymer self-assembly to organize Lsmα, a protein which forms stable doughnut-shaped heptameric structures. Here, we have explored the idea that 2-D crystalline arrays of protein filaments can be prepared by stacking doughnut shaped Lsmα protein into the poly(ethylene oxide) blocks of a hexagonal microphase-separated polystyrene-b-polyethylene oxide (PS-b-PEO) block copolymer. We were able to demonstrate the coordinated assembly of such a complex hierarchical nanostructure. The key to success was the choice of solvent systems and protein functionalization that achieved sufficient compatibility whilst still promoting assembly. Unambiguous characterisation of these structures is difficult; however AFM and TEM measurements confirmed that the protein was sequestered into the PEO blocks. The use of a protein that assembles into stackable doughnuts offers the possibility of assembling nanoscale optical, magnetic and electronic structures.
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Affiliation(s)
- Jenny Malmström
- MacDiarmid Institute for Advanced Materials and Nanotechnology, New Zealand.
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26
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Angelucci F, Bellelli A, Ardini M, Ippoliti R, Saccoccia F, Morea V. One ring (or two) to hold them all – on the structure and function of protein nanotubes. FEBS J 2015; 282:2827-45. [PMID: 26059483 DOI: 10.1111/febs.13336] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2014] [Revised: 03/31/2015] [Accepted: 06/04/2015] [Indexed: 01/07/2023]
Abstract
Understanding the structural determinants relevant to the formation of supramolecular assemblies of homo-oligomeric proteins is a traditional and central scope of structural biology. The knowledge thus gained is crucial both to infer their physiological function and to exploit their architecture for bionanomaterials design. Protein nanotubes made by one-dimensional arrays of homo-oligomers can be generated by either a commutative mechanism, yielding an 'open' structure (e.g. actin), or a noncommutative mechanism, whereby the final structure is formed by hierarchical self-assembly of intermediate 'closed' structures. Examples of the latter process are poorly described and the rules by which they assemble have not been unequivocally defined. We have collected and investigated examples of homo-oligomeric circular arrangements that form one-dimensional filaments of stacked rings by the noncommutative mechanism in vivo and in vitro. Based on their quaternary structure, circular arrangements of protein subunits can be subdivided into two groups that we term Rings of Dimers (e.g. peroxiredoxin and stable protein 1) and Dimers of Rings (e.g. thermosome/rosettasome), depending on the sub-structures that can be identified within the assembly (and, in some cases, populated in solution under selected experimental conditions). Structural analysis allowed us to identify the determinants by which ring-like molecular chaperones form filamentous-like assemblies and to formulate a novel hypothesis by which nanotube assembly, molecular chaperone activity and macromolecular crowding may be interconnected.
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Affiliation(s)
- Francesco Angelucci
- Department of Health, Life and Environmental Sciences, University of L'Aquila, Italy
| | - Andrea Bellelli
- Department of Biochemical Sciences 'A. Rossi Fanelli', Sapienza University of Rome and Istituto Pasteur-Fondazione Cenci Bolognetti, Rome, Italy
| | - Matteo Ardini
- Department of Health, Life and Environmental Sciences, University of L'Aquila, Italy
| | - Rodolfo Ippoliti
- Department of Health, Life and Environmental Sciences, University of L'Aquila, Italy
| | - Fulvio Saccoccia
- Department of Biochemical Sciences 'A. Rossi Fanelli', Sapienza University of Rome and Istituto Pasteur-Fondazione Cenci Bolognetti, Rome, Italy
| | - Veronica Morea
- CNR - National Research Council of Italy, Institute of Molecular Biology and Pathology, Rome, Italy
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27
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Cryo-Electron Microscopy Structure of Human Peroxiredoxin-3 Filament Reveals the Assembly of a Putative Chaperone. Structure 2015; 23:912-920. [DOI: 10.1016/j.str.2015.03.019] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2015] [Revised: 03/21/2015] [Accepted: 03/23/2015] [Indexed: 01/07/2023]
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28
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Cao Z, McGow DP, Shepherd C, Lindsay JG. Improved Catenated Structures of Bovine Peroxiredoxin III F190L Reveal Details of Ring-Ring Interactions and a Novel Conformational State. PLoS One 2015; 10:e0123303. [PMID: 25906064 PMCID: PMC4407889 DOI: 10.1371/journal.pone.0123303] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2014] [Accepted: 03/03/2015] [Indexed: 11/19/2022] Open
Abstract
Mitochondrial 2-cys peroxiredoxin III (PrxIII) is a key player in antioxidant defence reducing locally-generated H2O2 to H2O. A Phe to Leu (F190L) mutation in the C-terminal α-helix of PrxIII, mimicking that found in some bacteria and parasites, increases its resistance to hyperoxidation but has no obvious influence on peroxidase activity. Here we report on the oxidized and reduced crystal structures of bovine PrxIII F190L at 2.4 Å and 2.2 Å, respectively. Both structures exist as two-ring catenanes with their dodecameric rings inclined at 55o to each other, similar to that previously reported for PrxIII C168S. The new higher-resolution structures reveal details of the complex network of H-bonds stabilising the inter-toroid contacts. In addition, Arg123, the key conserved residue, that normally interacts with the catalytic cys (Cp, cys 47) is found in a distinct conformation extending away from the Cp while the characteristic Arg-Glu-Arg network, underpinning the active-site geometry also displays a distinctive arrangement, not observed previously. This novel active-site organisation may provide new insights into the dynamics of the large-scale conformational changes occurring between oxidized and reduced states.
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Affiliation(s)
- Zhenbo Cao
- From the Institute of Molecular, Cell and Systems Biology, CMVLS, University of Glasgow, Glasgow, United Kingdom
| | - Donna P. McGow
- From the Institute of Molecular, Cell and Systems Biology, CMVLS, University of Glasgow, Glasgow, United Kingdom
| | - Colin Shepherd
- From the Institute of Molecular, Cell and Systems Biology, CMVLS, University of Glasgow, Glasgow, United Kingdom
| | - J. Gordon Lindsay
- From the Institute of Molecular, Cell and Systems Biology, CMVLS, University of Glasgow, Glasgow, United Kingdom
- * E-mail:
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