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Zhang W, Liu M, Wang Y, Wang X, Wang R, Li S, Yu L, Zhang F, Wang C. β-Sheet Assembly Translates Conservative Single-Site Mutation into a Perturbation in Macroscopic Structure. NANO LETTERS 2023; 23:2370-2378. [PMID: 36897606 DOI: 10.1021/acs.nanolett.3c00311] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
Transferring structural information from amino acid sequence to macroscale assembly is a challenging approach for designing protein quaternary structure. However, the pathway by which the slight variations in sequence result in a global perturbation effect on the assembled structure is unknown. Herein, we design two synthetic peptides, QNL-His and QNL-Arg, with one amino acid substitution and use scanning tunneling microscopy (STM) to image individual peptides in the assembled state. The submolecular resolution of STM enables us to determine the folding structure and β-sheet supramolecular organization of peptides. QNL-His and QNL-Arg differ in their β-strand length distribution in pleated β-sheet association. These structural variations lead to distinguishable outcomes in their β-sheet assembled fibrils and phase transitions. The comparison of QNL-His versus QNL-Arg structures and macroscopic properties unveils the role of assembly to amplify the structural variations associated with a single-site mutation from a single-molecule scale to a macroscopic scale.
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Affiliation(s)
- Wenbo Zhang
- State Key Laboratory of Medical Molecular Biology, Haihe Laboratory of Cell Ecosystem, Department of Biophysics and Structural Biology, Institute of Basic Medical Sciences Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, P. R. China
| | - Mingwei Liu
- State Key Laboratory of Medical Molecular Biology, Haihe Laboratory of Cell Ecosystem, Department of Biophysics and Structural Biology, Institute of Basic Medical Sciences Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, P. R. China
| | - Yang Wang
- State Key Laboratory of Medical Molecular Biology, Haihe Laboratory of Cell Ecosystem, Department of Biophysics and Structural Biology, Institute of Basic Medical Sciences Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, P. R. China
| | - Xin Wang
- Smith School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, New York 14850, United States
| | - Ruonan Wang
- State Key Laboratory of Medical Molecular Biology, Haihe Laboratory of Cell Ecosystem, Department of Biophysics and Structural Biology, Institute of Basic Medical Sciences Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, P. R. China
| | - Shuyuan Li
- State Key Laboratory of Medical Molecular Biology, Haihe Laboratory of Cell Ecosystem, Department of Biophysics and Structural Biology, Institute of Basic Medical Sciences Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, P. R. China
| | - Lanlan Yu
- State Key Laboratory of Medical Molecular Biology, Haihe Laboratory of Cell Ecosystem, Department of Biophysics and Structural Biology, Institute of Basic Medical Sciences Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, P. R. China
| | - Feiyi Zhang
- State Key Laboratory of Medical Molecular Biology, Haihe Laboratory of Cell Ecosystem, Department of Biophysics and Structural Biology, Institute of Basic Medical Sciences Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, P. R. China
- Institute for Advanced Materials, Jiangsu University, Zhenjiang, Jiangsu 212013, P. R. China
| | - Chenxuan Wang
- State Key Laboratory of Medical Molecular Biology, Haihe Laboratory of Cell Ecosystem, Department of Biophysics and Structural Biology, Institute of Basic Medical Sciences Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, P. R. China
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2
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Fang M, Zhang Q, Wang X, Su K, Guan P, Hu X. Inhibition Mechanisms of (-)-Epigallocatechin-3-gallate and Genistein on Amyloid-beta 42 Peptide of Alzheimer's Disease via Molecular Simulations. ACS OMEGA 2022; 7:19665-19675. [PMID: 35721940 PMCID: PMC9202277 DOI: 10.1021/acsomega.2c01412] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/09/2022] [Accepted: 05/18/2022] [Indexed: 05/06/2023]
Abstract
The misfolding and self-assembly of amyloid-beta (Aβ) peptides are one of the most important factors contributing to Alzheimer's disease (AD). This study aims to reveal the inhibition mechanisms of (-)-epigallocatechin-3-gallate (EGCG) and genistein on the conformational changes of Aβ42 peptides by using molecular docking and molecular dynamics (MD) simulation. The results indicate that both EGCG and genistein have inhibitory effects on the conformational transition of Aβ42 peptide. EGCG and genistein reduce the ratio of β-sheet secondary structures of Aβ42 peptide while inducing random coil structures. In terms of hydrophobic interactions in the central hydrophobic core of Aβ42 peptide, the binding affinities of EGCG are significantly larger in comparison with that of genistein. Our findings illustrate the inhibition mechanisms of EGCG and genistein on the Aβ42 peptides and prove that EGCG is a very promising inhibitor in impeding the conformational change of Aβ42 peptide.
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Affiliation(s)
- Mei Fang
- Department
of Chemistry, School of Chemistry and Chemical Engineering, Northwestern Polytechnical University, Xi’an, Shaanxi 710072, China
| | - Quan Zhang
- Department
of Biomedical Engineering, School of Life Science and Technology, Xi’an Jiaotong University, Xi’an, Shaanxi 710049, China
| | - Xin Wang
- Department
of Chemistry, School of Chemistry and Chemical Engineering, Northwestern Polytechnical University, Xi’an, Shaanxi 710072, China
| | - Kehe Su
- Department
of Chemistry, School of Chemistry and Chemical Engineering, Northwestern Polytechnical University, Xi’an, Shaanxi 710072, China
| | - Ping Guan
- Department
of Chemistry, School of Chemistry and Chemical Engineering, Northwestern Polytechnical University, Xi’an, Shaanxi 710072, China
| | - Xiaoling Hu
- Department
of Chemistry, School of Chemistry and Chemical Engineering, Northwestern Polytechnical University, Xi’an, Shaanxi 710072, China
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3
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Xuan Q, Wang Y, Chen C, Wang P. Rational Biological Interface Engineering: Amyloidal Supramolecular Microstructure-Inspired Hydrogel. Front Bioeng Biotechnol 2021; 9:718883. [PMID: 34350165 PMCID: PMC8327773 DOI: 10.3389/fbioe.2021.718883] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2021] [Accepted: 06/15/2021] [Indexed: 01/22/2023] Open
Abstract
Amyloidal proteins, which are prone to form fibrillar and ordered aggregates in vivo and in vitro, underlie the mechanism for neurodegenerative disorders and also play essential functions in the process of life. Amyloid fibrils typically adopt a distinctive β-sheet structure, which renders them with inherent extracellular matrix (ECM)-mimicking properties, such as powerful mechanical strength, promising adhesion, and antibacterial activity. Additionally, amyloidal proteins are a category of programmable self-assembled macromolecules, and their assembly and consequent nanostructure can be manipulated rationally. The above advantages motivate researchers to investigate the potential of amyloidal proteins as a novel type of hydrogel material. Currently, the amyloid-inspired hydrogel has become an emerging area and has been widely applied in a variety of biomedical fields, such as tissue repair, cell scaffolds, and drug delivery. In this review, we focus on the discussion of molecular mechanisms underlying the hydrogenation of amyloidal proteins, and introduce the advances achieved in biomedical applications of amyloid-inspired hydrogels.
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Affiliation(s)
- Qize Xuan
- State Key Laboratory of Bioreactor Engineering, School of Biotechnology, East China University of Science and Technology, Shanghai, China
| | - Yibing Wang
- State Key Laboratory of Bioreactor Engineering, School of Biotechnology, East China University of Science and Technology, Shanghai, China
| | - Chao Chen
- State Key Laboratory of Bioreactor Engineering, School of Biotechnology, East China University of Science and Technology, Shanghai, China
| | - Ping Wang
- Department of Bioproducts and Biosystems Engineering, University of Minnesota, Saint Paul, MN, United States
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4
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Jang J, Park CB. Near-Infrared-Active Copper Molybdenum Sulfide Nanocubes for Phonon-Mediated Clearance of Alzheimer's β-Amyloid Aggregates. ACS APPLIED MATERIALS & INTERFACES 2021; 13:18581-18593. [PMID: 33861570 DOI: 10.1021/acsami.1c03066] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Ternary chalcogenide materials have attracted significant interest in recent years because of their unique physicochemical and optoelectronic properties without relying on precious metals, rare earth metals, or toxic elements. Copper molybdenum sulfide (Cu2MoS4, CMS) nanocube is a biocompatible ternary chalcogenide nanomaterial that exhibits near-infrared (NIR) photocatalytic activity based on its low band gap and electron-phonon coupling property. Here, we study the efficacy of CMS nanocubes for dissociating neurotoxic Alzheimer's β-amyloid (Aβ) aggregates under NIR light. The accumulation of Aβ aggregates in the central nervous system is known to cause and exacerbate Alzheimer's disease (AD). However, clearance of the Aβ aggregates from the central nervous system is a considerable challenge due to their robust structure formed through self-assembly via hydrogen bonding and side-chain interactions. Our spectroscopic and microscopic analysis results have demonstrated that NIR-excited CMS nanocubes effectively disassemble Aβ fibrils by changing Aβ fibril's nanoscopic morphology, secondary structure, and primary structure. We have revealed that the toxicity of Aβ fibrils is alleviated by NIR-stimulated CMS nanocubes through in vitro analysis. Moreover, our ex vivo evaluations have suggested that the amount of Aβ plaques in AD mouse's brain decreased significantly by NIR-excited CMS nanocubes without causing any macroscopic damage to the brain tissue. Collectively, this study suggests the potential use of CMS nanocubes as a therapeutic ternary chalcogenide material to alleviate AD in the future.
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Affiliation(s)
- Jinhyeong Jang
- Department of Materials Science and Engineering, Korea Advanced Institute of Science and Technology (KAIST), 335 Science Road, Daejeon 34141, Republic of Korea
| | - Chan Beum Park
- Department of Materials Science and Engineering, Korea Advanced Institute of Science and Technology (KAIST), 335 Science Road, Daejeon 34141, Republic of Korea
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5
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Prasanna G, Jing P. Self-assembly of N-terminal Alzheimer's β-amyloid and its inhibition. Biochem Biophys Res Commun 2020; 534:950-956. [PMID: 33143872 DOI: 10.1016/j.bbrc.2020.10.065] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2020] [Accepted: 10/23/2020] [Indexed: 10/23/2022]
Abstract
Peptide sequence modulates amyloid fibril formation and triggers Alzheimer's disease. The N-terminal region of amyloid peptide is disordered and lack any specific secondary structure. An ionic interaction of Aβ1-11 with factor XII is critical for the activation of the contact system in Alzheimer's disease. In this study, we report the self-assembly of fluctuating N-terminal Aβ1-11 into nanotubes using atomic force micrography, transmission electron microscopy, circular dichroism studies and molecular modeling studies. The effect of four polyphenols: baicalein, rutin, vanillin and cyanidin-3-O-glucoside (C3G) was also explored on the amyloid fibril inhibitor perspective using amyloid specific dye Thioflavin T (ThT). AFM micrographs suggested the self-assembly of Aβ1-11 into nanotubes after three weeks of incubation. Microwave treatment results in the conformational variation of disordered structure to β-sheet rich amyloid fibrils. The presence of salts (sodium and potassium chloride) induces the structural transformation of Aβ1-11 to super-helix. Fluorescence spectroscopy studies using ThT suggested differential inhibition of amyloid fibrils formation in the presence of polyphenols. Molecular modeling studies suggested that binding of polyphenols to Aβ1-11 through hydrophobic interaction (Phe4 and Tyr 10) and hydrogen bonding (Glu3 and Arg5) play a substantial role in stabilizing Aβ1-11-polyphenols complex. In the presence of polyphenols, Aβ1-11 transforms to hybrid nanostructures thus hindering amyloid fibril formation. These results provide structural insights and importance of the N-terminal residues in the Aβ1-42 self-assembly mechanism.
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Affiliation(s)
- Govindarajan Prasanna
- Shanghai Food Safety and Engineering Technology Research Center, Key Lab of Urban Agriculture (South), Bor S. Luh Food Safety Research Center, School of Agriculture & Biology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Pu Jing
- Shanghai Food Safety and Engineering Technology Research Center, Key Lab of Urban Agriculture (South), Bor S. Luh Food Safety Research Center, School of Agriculture & Biology, Shanghai Jiao Tong University, Shanghai 200240, China.
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6
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Zhang W, Mo S, Liu M, Liu L, Yu L, Wang C. Rationally Designed Protein Building Blocks for Programmable Hierarchical Architectures. Front Chem 2020; 8:587975. [PMID: 33195088 PMCID: PMC7658299 DOI: 10.3389/fchem.2020.587975] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2020] [Accepted: 10/05/2020] [Indexed: 01/23/2023] Open
Abstract
Diverse natural/artificial proteins have been used as building blocks to construct a variety of well-ordered nanoscale structures over the past couple of decades. Sophisticated protein self-assemblies have attracted great scientific interests due to their potential applications in disease diagnosis, illness treatment, biomechanics, bio-optics and bio-electronics, etc. This review outlines recent efforts directed to the creation of structurally defined protein assemblies including one-dimensional (1D) strings/rings/tubules, two-dimensional (2D) planar sheets and three-dimensional (3D) polyhedral scaffolds. We elucidate various innovative strategies for manipulating proteins to self-assemble into desired architectures. The emergent applications of protein assemblies as versatile platforms in medicine and material science with improved performances have also been discussed.
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Affiliation(s)
- Wenbo Zhang
- State Key Laboratory of Medical Molecular Biology, Institute of Basic Medical Sciences, Department of Biophysics and Structural Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Shanshan Mo
- State Key Laboratory of Medical Molecular Biology, Institute of Basic Medical Sciences, Department of Biophysics and Structural Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Mingwei Liu
- State Key Laboratory of Medical Molecular Biology, Institute of Basic Medical Sciences, Department of Biophysics and Structural Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Lei Liu
- Department of Chemistry, University of Wisconsin-Madison, Madison, WI, United States
| | - Lanlan Yu
- State Key Laboratory of Medical Molecular Biology, Institute of Basic Medical Sciences, Department of Biophysics and Structural Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Chenxuan Wang
- State Key Laboratory of Medical Molecular Biology, Institute of Basic Medical Sciences, Department of Biophysics and Structural Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
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7
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Ghasemzadeh S, Riazi GH. Inhibition of Tau amyloid fibril formation by folic acid: In-vitro and theoretical studies. Int J Biol Macromol 2020; 154:1505-1516. [DOI: 10.1016/j.ijbiomac.2019.11.032] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2019] [Revised: 10/19/2019] [Accepted: 11/05/2019] [Indexed: 10/25/2022]
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8
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Chen WL, Ma ST, Chen YW, Chao YC, Chan AC, Tu LH, Liu WM. A Fluorogenic Molecule for Probing Islet Amyloid Using Flavonoid as a Scaffold Design. Biochemistry 2020; 59:1482-1492. [DOI: 10.1021/acs.biochem.0c00076] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Wei-Ling Chen
- Department of Chemistry, National Taiwan Normal University, Taipei 116, Taiwan
| | - Shih-Ting Ma
- Department of Chemistry, Fu Jen Catholic University, New Taipei City 24205, Taiwan
| | - Yun-Wen Chen
- Department of Pharmacology, College of Medicine, National Cheng Kung University, Tainan 701, Taiwan
| | - Yen-Cheng Chao
- Department of Chemistry, Fu Jen Catholic University, New Taipei City 24205, Taiwan
| | - Ai-Ci Chan
- Department of Chemistry, National Taiwan Normal University, Taipei 116, Taiwan
| | - Ling-Hsien Tu
- Department of Chemistry, National Taiwan Normal University, Taipei 116, Taiwan
| | - Wei-Min Liu
- Department of Chemistry, Fu Jen Catholic University, New Taipei City 24205, Taiwan
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9
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Arad E, Green H, Jelinek R, Rapaport H. Revisiting thioflavin T (ThT) fluorescence as a marker of protein fibrillation - The prominent role of electrostatic interactions. J Colloid Interface Sci 2020; 573:87-95. [PMID: 32272300 DOI: 10.1016/j.jcis.2020.03.075] [Citation(s) in RCA: 51] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2020] [Revised: 03/07/2020] [Accepted: 03/21/2020] [Indexed: 12/25/2022]
Abstract
Thioflavin T (ThT), a benzothiazole-based fluorophore, is a prominent dye widely employed for monitoring amyloid fibril assembly. Despite the near-universal presumption that ThT binds to β-sheet domains upon fibrillar surface via hydrophobic forces, the contribution of the positive charge of ThT to fibril binding and concomitant fluorescence enhancement have not been thoroughly assessed. Here we demonstrate a considerable interdependence between ThT fluorescence and electrostatic charges of peptide fibrils. Specifically, by analyzing both fibril-forming synthetic peptides and prominent natural fibrillar peptides, we demonstrate pronounced modulations of ThT fluorescence signal that were solely dependent upon electrostatic interactions between ThT and peptide surface. The results further attest to the fact that fibril ζ-potential rather than pH-dependent assembly of the fibrils constitute the primary factor affecting ThT binding and fluorescence. This study provides the first quantitative assessment of electrostatically driven ThT fluorescence upon adsorption to amyloid fibrils.
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Affiliation(s)
- Elad Arad
- Ilse Katz Institute for Nanoscale Science and Technology, Ben Gurion University of the Negev, Beer Sheva 8410501, Israel; Department of Chemistry, Ben Gurion University of the Negev, Beer Sheva 8410501, Israel
| | - Hodaya Green
- Avram and Stella Goldstein-Goren Department of Biotechnology Engineering, Ben Gurion University of the Negev, Beer Sheva 8410501, Israel
| | - Raz Jelinek
- Ilse Katz Institute for Nanoscale Science and Technology, Ben Gurion University of the Negev, Beer Sheva 8410501, Israel; Department of Chemistry, Ben Gurion University of the Negev, Beer Sheva 8410501, Israel.
| | - Hanna Rapaport
- Ilse Katz Institute for Nanoscale Science and Technology, Ben Gurion University of the Negev, Beer Sheva 8410501, Israel; Avram and Stella Goldstein-Goren Department of Biotechnology Engineering, Ben Gurion University of the Negev, Beer Sheva 8410501, Israel.
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10
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Chen H, Sun D, Tian Y, Fan H, Liu Y, Morozova-Roche LA, Zhang C. Surface-Directed Structural Transition of Amyloidogenic Aggregates and the Resulting Neurotoxicity. ACS OMEGA 2020; 5:2856-2864. [PMID: 32095707 PMCID: PMC7034003 DOI: 10.1021/acsomega.9b03671] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/31/2019] [Accepted: 01/27/2020] [Indexed: 06/10/2023]
Abstract
The transition of amyloidogenic species into ordered structures (i.e., prefibrillar oligomers, protofibrils, mature fibrils, and amyloidogenic aggregates) is closely associated with many neurodegenerative disease pathologies. It is increasingly appreciated that the liquid-solid interface contributes to peptide aggregation under physiological conditions. However, much remains to be explored on the molecular mechanism of surface-directed amyloid formation. We herein demonstrate that physical environmental conditions (i.e., negatively charged surface) affect amyloid formation. Nontoxic amyloid aggregates quickly develop into intertwisting fibrils on a negatively charged mica surface. These fibrillar structures show significant cytotoxicity on both neuroblastoma cell-lines (SH-SY5Y) and primary neural stem cells. Our results suggest an alternative amyloid development pathway, following which Aβ peptides form large amyloidogenic aggregates upon stimulation, and later transit into neurotoxic fibrillar structures while being trapped and aligned by a negatively charged surface. Conceivably, the interplay between chemical and physical environmental conditions plays important roles in the development of neurodegenerative diseases.
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Affiliation(s)
- Hao Chen
- School
of Chemical Engineering, Northwest University, Xi’an 710069, China
| | - Dan Sun
- State
Key Laboratory of Cultivation Base for Photoelectric Technology and
Functional Materials, Institute of Photonics and Photon-Technology, Northwest University, Xi’an 710069, China
| | - Yin Tian
- Laboratory
of Stem Cell and Tissue Engineering, Chongqing
Medical University, Chongqing 400016, China
| | - Haiming Fan
- College
of Chemistry and Materials Science, Northwest
University, Xi’an 710127, China
| | - Yonggang Liu
- Laboratory
of Stem Cell and Tissue Engineering, Chongqing
Medical University, Chongqing 400016, China
| | | | - Ce Zhang
- State
Key Laboratory of Cultivation Base for Photoelectric Technology and
Functional Materials, Institute of Photonics and Photon-Technology, Northwest University, Xi’an 710069, China
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11
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Vus K, Girych M, Trusova V, Gorbenko G, Kurutos A, Vasilev A, Gadjev N, Deligeorgiev T. Cyanine dyes derived inhibition of insulin fibrillization. J Mol Liq 2019. [DOI: 10.1016/j.molliq.2018.11.149] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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12
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Yu L, Yang Y, Wang C. Peptide Self-Assembly and Its Modulation: Imaging on the Nanoscale. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2019; 1174:35-60. [PMID: 31713196 DOI: 10.1007/978-981-13-9791-2_2] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
This chapter intends to review the progress in obtaining site-specific structural information for peptide assemblies using scanning tunneling microscopy. The effects on assembly propensity due to mutations and modifications in peptide sequences, small organic molecules and conformational transitions of peptides are identified. The obtained structural insights into the sequence-dependent assembly propensity could inspire rational design of peptide architectures at the molecular level.
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Affiliation(s)
- Lanlan Yu
- National Center for Nanoscience and Technology, Chinese Academy of Sciences, Beijing, China
| | - Yanlian Yang
- National Center for Nanoscience and Technology, Chinese Academy of Sciences, Beijing, China
| | - Chen Wang
- National Center for Nanoscience and Technology, Chinese Academy of Sciences, Beijing, China.
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13
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Effective suppression of the modified PHF6 peptide/1N4R Tau amyloid aggregation by intact curcumin, not its degradation products: Another evidence for the pigment as preventive/therapeutic “functional food”. Int J Biol Macromol 2018; 120:1009-1022. [DOI: 10.1016/j.ijbiomac.2018.08.175] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2018] [Revised: 08/27/2018] [Accepted: 08/28/2018] [Indexed: 11/24/2022]
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14
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Bruinsma S, James DJ, Quintana Serrano M, Esquibel J, Woo SS, Kielar-Grevstad E, Crummy E, Qurashi R, Kowalchyk JA, Martin TFJ. Small molecules that inhibit the late stage of Munc13-4-dependent secretory granule exocytosis in mast cells. J Biol Chem 2018; 293:8217-8229. [PMID: 29615494 PMCID: PMC5971468 DOI: 10.1074/jbc.ra117.001547] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2017] [Revised: 03/30/2018] [Indexed: 01/05/2023] Open
Abstract
Ca2+-dependent secretory granule fusion with the plasma membrane is the final step for the exocytic release of inflammatory mediators, neuropeptides, and peptide hormones. Secretory cells use a similar protein machinery at late steps in the regulated secretory pathway, employing protein isoforms from the Rab, Sec1/Munc18, Munc13/CAPS, SNARE, and synaptotagmin protein families. However, no small-molecule inhibitors of secretory granule exocytosis that target these proteins are currently available but could have clinical utility. Here we utilized a high-throughput screen of a 25,000-compound library that identified 129 small-molecule inhibitors of Ca2+-triggered secretory granule exocytosis in RBL-2H3 mast cells. These inhibitors broadly fell into six different chemical classes, and follow-up permeable cell and liposome fusion assays identified the target for one class of these inhibitors. A family of 2-aminobenzothiazoles (termed benzothiazole exocytosis inhibitors or bexins) was found to inhibit mast cell secretory granule fusion by acting on a Ca2+-dependent, C2 domain–containing priming factor, Munc13-4. Our findings further indicated that bexins interfere with Munc13-4–membrane interactions and thereby inhibit Munc13-4–dependent membrane fusion. We conclude that bexins represent a class of specific secretory pathway inhibitors with potential as therapeutic agents.
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Affiliation(s)
- Stephen Bruinsma
- Department of Biochemistry, University of Wisconsin, Madison Wisconsin 53706
| | - Declan J James
- Department of Biochemistry, University of Wisconsin, Madison Wisconsin 53706
| | | | - Joseph Esquibel
- Department of Biochemistry, University of Wisconsin, Madison Wisconsin 53706
| | - Sang Su Woo
- Department of Biochemistry, University of Wisconsin, Madison Wisconsin 53706
| | | | - Ellen Crummy
- Department of Biochemistry, University of Wisconsin, Madison Wisconsin 53706
| | - Rehan Qurashi
- Department of Biochemistry, University of Wisconsin, Madison Wisconsin 53706
| | - Judy A Kowalchyk
- Department of Biochemistry, University of Wisconsin, Madison Wisconsin 53706
| | - Thomas F J Martin
- Department of Biochemistry, University of Wisconsin, Madison Wisconsin 53706.
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15
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Basu A, Bhayye S, Kundu S, Das A, Mukherjee A. Andrographolide inhibits human serum albumin fibril formations through site-specific molecular interactions. RSC Adv 2018; 8:30717-30724. [PMID: 35548768 PMCID: PMC9085492 DOI: 10.1039/c8ra04637a] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2018] [Accepted: 08/03/2018] [Indexed: 01/13/2023] Open
Abstract
Protein misfolding and fibrillation are the fundamental traits in degenerative diseases like Alzheimer's, Parkinsonism, and diabetes mellitus. Bioactives such as flavonoids and terpenoids from plant sources are known to express protective effects against an array of diseases including diabetes, Alzheimer's and obesity. Andrographolide (AG), a labdane diterpenoid is prescribed widely in the Indian and Chinese health care systems for classical efficacy against a number of degenerative diseases. This work presents an in depth study on the effects of AG on protein fibrillating pathophysiology. Thioflavin T fluorescence spectroscopy and DLS results indicated concentration dependent inhibition of human serum albumin (HSA) fibrillation. The results were confirmed by electron microscopy studies. HSA fibril formations were markedly reduced in the presence of AG. Fluorescence studies and UV-Vis experiments confirmed further that AG molecularly interacts with HSA at site. In silico molecular docking studies revealed hydrogen bonding and hydrophobic interactions with HSA in the native state. Thus AG interacts with HSA, stabilizes the native protein structure and inhibits fibrillation. The results demonstrated that the compound possesses anti-amyloidogenic properties and can be promising against some human degenerative diseases. Andrographolide inhibited HSA protein fibrillation through site specific interactions.![]()
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Affiliation(s)
- Aalok Basu
- Division of Pharmaceutical and Fine Chemical Technology
- Department of Chemical Technology
- University of Calcutta
- Kolkata 700009
- India
| | - Sagar Bhayye
- Division of Pharmaceutical and Fine Chemical Technology
- Department of Chemical Technology
- University of Calcutta
- Kolkata 700009
- India
| | - Sonia Kundu
- Division of Pharmaceutical and Fine Chemical Technology
- Department of Chemical Technology
- University of Calcutta
- Kolkata 700009
- India
| | - Aatryee Das
- Division of Pharmaceutical and Fine Chemical Technology
- Department of Chemical Technology
- University of Calcutta
- Kolkata 700009
- India
| | - Arup Mukherjee
- Division of Pharmaceutical and Fine Chemical Technology
- Department of Chemical Technology
- University of Calcutta
- Kolkata 700009
- India
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16
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Wang ST, Lin Y, Todorova N, Xu Y, Mazo M, Rana S, Leonardo V, Amdursky N, Spicer CD, Alexander BD, Edwards AA, Matthews SJ, Yarovsky I, Stevens MM. Facet-Dependent Interactions of Islet Amyloid Polypeptide with Gold Nanoparticles: Implications for Fibril Formation and Peptide-Induced Lipid Membrane Disruption. CHEMISTRY OF MATERIALS : A PUBLICATION OF THE AMERICAN CHEMICAL SOCIETY 2017; 29:1550-1560. [PMID: 28260837 PMCID: PMC5333186 DOI: 10.1021/acs.chemmater.6b04144] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2016] [Revised: 01/25/2017] [Indexed: 05/03/2023]
Abstract
A comprehensive understanding of the mechanisms of interaction between proteins or peptides and nanomaterials is crucial for the development of nanomaterial-based diagnostics and therapeutics. In this work, we systematically explored the interactions between citrate-capped gold nanoparticles (AuNPs) and islet amyloid polypeptide (IAPP), a 37-amino acid peptide hormone co-secreted with insulin from the pancreatic islet. We utilized diffusion-ordered spectroscopy, isothermal titration calorimetry, localized surface plasmon resonance spectroscopy, gel electrophoresis, atomic force microscopy, transmission electron microscopy (TEM), and molecular dynamics (MD) simulations to systematically elucidate the underlying mechanism of the IAPP-AuNP interactions. Because of the presence of a metal-binding sequence motif in the hydrophilic peptide domain, IAPP strongly interacts with the Au surface in both the monomeric and fibrillar states. Circular dichroism showed that AuNPs triggered the IAPP conformational transition from random coil to ordered structures (α-helix and β-sheet), and TEM imaging suggested the acceleration of IAPP fibrillation in the presence of AuNPs. MD simulations revealed that the IAPP-AuNP interactions were initiated by the N-terminal domain (IAPP residues 1-19), which subsequently induced a facet-dependent conformational change in IAPP. On a Au(111) surface, IAPP was unfolded and adsorbed directly onto the Au surface, while for the Au(100) surface, it interacted predominantly with the citrate adlayer and retained some helical conformation. The observed affinity of AuNPs for IAPP was further applied to reduce the level of peptide-induced lipid membrane disruption.
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Affiliation(s)
- Shih-Ting Wang
- Department
of Materials, Imperial College London, London SW7 2AZ, U.K.
- Department
of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London SW7 2AZ, U.K.
| | - Yiyang Lin
- Department
of Materials, Imperial College London, London SW7 2AZ, U.K.
- Department
of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London SW7 2AZ, U.K.
| | - Nevena Todorova
- School
of Engineering, RMIT University, GPO Box 2476, Melbourne, Victoria 3001, Australia
| | - Yingqi Xu
- Department
of Life Sciences, Imperial College London, London SW7 2AZ, U.K.
| | - Manuel Mazo
- Department
of Materials, Imperial College London, London SW7 2AZ, U.K.
- Department
of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London SW7 2AZ, U.K.
| | - Subinoy Rana
- Department
of Materials, Imperial College London, London SW7 2AZ, U.K.
- Department
of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London SW7 2AZ, U.K.
| | - Vincent Leonardo
- Department
of Materials, Imperial College London, London SW7 2AZ, U.K.
- Department
of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London SW7 2AZ, U.K.
| | - Nadav Amdursky
- Department
of Materials, Imperial College London, London SW7 2AZ, U.K.
- Department
of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London SW7 2AZ, U.K.
| | - Christopher D. Spicer
- Department
of Materials, Imperial College London, London SW7 2AZ, U.K.
- Department
of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London SW7 2AZ, U.K.
| | - Bruce D. Alexander
- Department
of Pharmaceutical, Chemical and Environmental Science, University of Greenwich, Central Avenue, Chatham, Kent ME4 4TB, U.K.
| | - Alison A. Edwards
- Medway School
of Pharmacy, Universities of Kent and Greenwich
at Medway, Central Avenue, Chatham, Kent ME4 4TB, U.K.
| | - Steve J. Matthews
- Department
of Life Sciences, Imperial College London, London SW7 2AZ, U.K.
| | - Irene Yarovsky
- School
of Engineering, RMIT University, GPO Box 2476, Melbourne, Victoria 3001, Australia
| | - Molly M. Stevens
- Department
of Materials, Imperial College London, London SW7 2AZ, U.K.
- Department
of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London SW7 2AZ, U.K.
- E-mail:
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17
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Choi H, Chang HJ, Lee M, Na S. Characterizing Structural Stability of Amyloid Motif Fibrils Mediated by Water Molecules. Chemphyschem 2017; 18:817-827. [PMID: 28160391 DOI: 10.1002/cphc.201601327] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2016] [Revised: 01/12/2017] [Indexed: 11/12/2022]
Abstract
In biological systems, structural confinements of amyloid fibrils can be mediated by the role of water molecules. However, the underlying effect of the dynamic behavior of water molecules on structural stabilities of amyloid fibrils is still unclear. By performing molecular dynamics simulations, we investigate the dynamic features and the effect of interior water molecules on conformations and mechanical characteristics of various amyloid fibrils. We find that a specific mechanism induced by the dynamic properties of interior water molecules can affect diffusion of water molecules inside amyloid fibrils, inducing their different structural stabilities. The conformation of amyloid fibrils induced by interior water molecules show the fibrils' different mechanical features. We elucidate the role of confined and movable interior water molecules in structural stabilities of various amyloid fibrils. Our results offer insights not only in further understanding of mechanical features of amyloids as mediated by water molecules, but also in the fine-tuning of the functional abilities of amyloid fibrils for applications.
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Affiliation(s)
- Hyunsung Choi
- Department of Mechanical Engineering, Korea University, Seoul, 02841, Republic of Korea
| | - Hyun Joon Chang
- Department of Mechanical Engineering, Korea University, Seoul, 02841, Republic of Korea
| | - Myeongsang Lee
- Department of Mechanical Engineering, Korea University, Seoul, 02841, Republic of Korea
| | - Sungsoo Na
- Department of Mechanical Engineering, Korea University, Seoul, 02841, Republic of Korea
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18
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Rajasekhar K, Madhu C, Govindaraju T. Natural Tripeptide-Based Inhibitor of Multifaceted Amyloid β Toxicity. ACS Chem Neurosci 2016; 7:1300-10. [PMID: 27355515 DOI: 10.1021/acschemneuro.6b00175] [Citation(s) in RCA: 99] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023] Open
Abstract
Accumulation of amyloid beta (Aβ) peptide and its aggregates in the human brain is considered as one of the hallmarks of Alzheimer's disease (AD). The polymorphic oligomers and fully grown fibrillar aggregates of Aβ exhibit different levels of neuronal toxicity. Moreover, aggregation of Aβ in the presence of redox-active metal ions like Cu(2+) is responsible for the additional trait of cellular toxicity induced by the generation of reactive oxygen species (ROS). Herein, a multifunctional peptidomimetic inhibitor (P6) has been presented, based on a naturally occurring metal chelating tripeptide (GHK) and the inhibitor of Aβ aggregation. It was shown by employing various biophysical studies that P6 interact with Aβ and prevent the formation of toxic Aβ forms like oligomeric species and fibrillar aggregates. Further, P6 successfully sequestered Cu(2+) from the Aβ-Cu(2+) complex and maintained it in a redox-dormant state to prevent the generation of ROS. P6 inhibited membrane disruption by Aβ oligomers and efficiently prevented DNA damage caused by the Aβ-Cu(2+) complex. PC12 cells were rescued from multifaceted Aβ toxicity when treated with P6, and the amount of ROS generated in cells was reduced. These attributes make P6 a potential therapeutic candidate to ameliorate the multifaceted Aβ toxicity in AD.
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Affiliation(s)
- K. Rajasekhar
- Bioorganic Chemistry Laboratory,
New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur
P. O., Bengaluru 560064, Karnataka, India
| | - Chilakapati Madhu
- Bioorganic Chemistry Laboratory,
New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur
P. O., Bengaluru 560064, Karnataka, India
| | - T. Govindaraju
- Bioorganic Chemistry Laboratory,
New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur
P. O., Bengaluru 560064, Karnataka, India
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19
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Chowdhury SR, Agarwal M, Meher N, Muthuraj B, Iyer PK. Modulation of Amyloid Aggregates into Nontoxic Coaggregates by Hydroxyquinoline Appended Polyfluorene. ACS APPLIED MATERIALS & INTERFACES 2016; 8:13309-13319. [PMID: 27152771 DOI: 10.1021/acsami.6b03668] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Inhibitory modulation toward de novo protein aggregation is likely to be a vital and promising therapeutic strategy for understanding the molecular etiology of amyloid related diseases such as Alzheimer's disease (AD). The building up of toxic oligomeric and fibrillar amyloid aggregates in the brain plays host to a downstream of events, causing damage to axons, dendrites, synapses, signaling, transmission, and finally cell death. Herein, we introduce a novel conjugated polymer (CP), hydroxyquinoline appended polyfluorene (PF-HQ), which has a typical "amyloid like" surface motif and exhibits inhibitory modulation effect on amyloid β (Aβ) aggregation. We delineate inhibitory effects of PF-HQ based on Thioflavin T (ThT) fluorescence, atomic force microscopy (AFM), circular dichroism (CD), and Fourier transform infrared (FTIR) studies. The amyloid-like PF-HQ forms nano coaggregates by templating with toxic amyloid intermediates and displays improved inhibitory impacts toward Aβ fibrillation and diminishes amyloid cytotoxicity. We have developed a CP based modulation strategy for the first time, which demonstrates beneficiary amyloid-like surface motif to interact efficiently with the protein, the pendant side groups to trap the toxic amyloid intermediates as well as optical signal to acquire the mechanistic insight.
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Affiliation(s)
- Sayan Roy Chowdhury
- Department of Chemistry, ‡Department of Bioscience and Bioengineering, and §Center for Nanotechnology, Indian Institute of Technology Guwahati , Guwahati, 781039 Assam, India
| | - Mahesh Agarwal
- Department of Chemistry, ‡Department of Bioscience and Bioengineering, and §Center for Nanotechnology, Indian Institute of Technology Guwahati , Guwahati, 781039 Assam, India
| | - Niranjan Meher
- Department of Chemistry, ‡Department of Bioscience and Bioengineering, and §Center for Nanotechnology, Indian Institute of Technology Guwahati , Guwahati, 781039 Assam, India
| | - Balakrishnan Muthuraj
- Department of Chemistry, ‡Department of Bioscience and Bioengineering, and §Center for Nanotechnology, Indian Institute of Technology Guwahati , Guwahati, 781039 Assam, India
| | - Parameswar Krishnan Iyer
- Department of Chemistry, ‡Department of Bioscience and Bioengineering, and §Center for Nanotechnology, Indian Institute of Technology Guwahati , Guwahati, 781039 Assam, India
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20
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Kar RK, Gazova Z, Bednarikova Z, Mroue KH, Ghosh A, Zhang R, Ulicna K, Siebert HC, Nifantiev NE, Bhunia A. Evidence for Inhibition of Lysozyme Amyloid Fibrillization by Peptide Fragments from Human Lysozyme: A Combined Spectroscopy, Microscopy, and Docking Study. Biomacromolecules 2016; 17:1998-2009. [DOI: 10.1021/acs.biomac.6b00165] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Rajiv K. Kar
- Department
of Biophysics, Bose Institute, P-1/12 CIT Scheme VII (M), Kolkata 700054, India
| | - Zuzana Gazova
- Department
of Biophysics, Institute of Experimental Physics, Slovak Academy of Sciences, Watsonova 47, 040 01 Kosice, Slovakia
- Department
of Medical and Clinical Biochemistry Faculty of Medicine, Safarik University, Trieda SNP 1, 040 11 Kosice, Slovakia
| | - Zuzana Bednarikova
- Department
of Biophysics, Institute of Experimental Physics, Slovak Academy of Sciences, Watsonova 47, 040 01 Kosice, Slovakia
- Department
of Biochemistry, Institute of Chemistry, Faculty of Science, Safarik University, Srobarova 2, 041 54 Kosice, Slovakia
| | - Kamal H. Mroue
- Department
of Chemistry, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Anirban Ghosh
- Department
of Biophysics, Bose Institute, P-1/12 CIT Scheme VII (M), Kolkata 700054, India
| | - Ruiyan Zhang
- RI-B-NT Research
Institute
of Bioinformatics and Nanotechnology, Franziusallee 177, 24148 Kiel, Germany
| | - Katarina Ulicna
- Department
of Biophysics, Institute of Experimental Physics, Slovak Academy of Sciences, Watsonova 47, 040 01 Kosice, Slovakia
- Institute
of Biology and Ecology, Faculty of Science, Safarik University, Srobarova 2, 041 54 Kosice, Slovakia
| | - Hans-Christian Siebert
- RI-B-NT Research
Institute
of Bioinformatics and Nanotechnology, Franziusallee 177, 24148 Kiel, Germany
| | - Nikolay E. Nifantiev
- N.
D. Zellinsky Institute of Organic Chemistry, Russian Academy of Sciences, 119991 Moscow, Russian Federation
| | - Anirban Bhunia
- Department
of Biophysics, Bose Institute, P-1/12 CIT Scheme VII (M), Kolkata 700054, India
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21
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Niu L, Liu L, Xi W, Han Q, Li Q, Yu Y, Huang Q, Qu F, Xu M, Li Y, Du H, Yang R, Cramer J, Gothelf KV, Dong M, Besenbacher F, Zeng Q, Wang C, Wei G, Yang Y. Synergistic Inhibitory Effect of Peptide-Organic Coassemblies on Amyloid Aggregation. ACS NANO 2016; 10:4143-4153. [PMID: 26982522 DOI: 10.1021/acsnano.5b07396] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Inhibition of amyloid aggregation is important for developing potential therapeutic strategies of amyloid-related diseases. Herein, we report that the inhibition effect of a pristine peptide motif (KLVFF) can be significantly improved by introducing a terminal regulatory moiety (terpyridine). The molecular-level observations by using scanning tunneling microscopy reveal stoichiometry-dependent polymorphism of the coassembly structures, which originates from the terminal interactions of peptide with organic modulator moieties and can be attributed to the secondary structures of peptides and conformations of the organic molecules. Furthermore, the polymorphism of the peptide-organic coassemblies is shown to be correlated to distinctively different inhibition effects on amyloid-β 42 (Aβ42) aggregations and cytotoxicity.
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Affiliation(s)
- Lin Niu
- CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology , Beijing 100190, China
| | - Lei Liu
- CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology , Beijing 100190, China
- Institute for Advanced Materials, Jiangsu University , Jiangsu 212013, China
| | - Wenhui Xi
- State Key Laboratory of Surface Physics, Key Laboratory for Computational Physical Sciences (MOE), and Department of Physics, Fudan University , Shanghai 200433, China
| | - Qiusen Han
- CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology , Beijing 100190, China
| | - Qiang Li
- Interdisciplinary Nanoscience Center (iNANO), Center for DNA Nanotechnology (CDNA), Aarhus University , DK-8000 Aarhus C, Denmark
| | - Yue Yu
- CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology , Beijing 100190, China
| | - Qunxing Huang
- CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology , Beijing 100190, China
| | - Fuyang Qu
- CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology , Beijing 100190, China
| | - Meng Xu
- CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology , Beijing 100190, China
| | - Yibao Li
- CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology , Beijing 100190, China
| | - Huiwen Du
- CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology , Beijing 100190, China
| | - Rong Yang
- CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology , Beijing 100190, China
| | - Jacob Cramer
- Interdisciplinary Nanoscience Center (iNANO), Center for DNA Nanotechnology (CDNA), Aarhus University , DK-8000 Aarhus C, Denmark
| | - Kurt V Gothelf
- Interdisciplinary Nanoscience Center (iNANO), Center for DNA Nanotechnology (CDNA), Aarhus University , DK-8000 Aarhus C, Denmark
| | - Mingdong Dong
- Interdisciplinary Nanoscience Center (iNANO), Center for DNA Nanotechnology (CDNA), Aarhus University , DK-8000 Aarhus C, Denmark
| | - Flemming Besenbacher
- Interdisciplinary Nanoscience Center (iNANO), Center for DNA Nanotechnology (CDNA), Aarhus University , DK-8000 Aarhus C, Denmark
| | - Qingdao Zeng
- CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology , Beijing 100190, China
| | - Chen Wang
- CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology , Beijing 100190, China
| | - Guanghong Wei
- State Key Laboratory of Surface Physics, Key Laboratory for Computational Physical Sciences (MOE), and Department of Physics, Fudan University , Shanghai 200433, China
| | - Yanlian Yang
- CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology , Beijing 100190, China
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22
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Zhao H, Song X, Aslan H, Liu B, Wang J, Wang L, Besenbacher F, Dong M. Self-assembly of hydrogen-bonded supramolecular complexes of nucleic-acid-base and fatty-acid at the liquid–solid interface. Phys Chem Chem Phys 2016; 18:14168-71. [DOI: 10.1039/c6cp00112b] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The interesting sandwich-like architectures were formed at the liquid–solid interface by using a binary system consisting of guanine and stearic acid.
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Affiliation(s)
- Huiling Zhao
- Interdisciplinary Nanoscience Center (iNANO)
- Center for DNA Nanotechnology (CDNA)
- Aarhus University
- DK-8000 Aarhus C
- Denmark
| | - Xin Song
- Interdisciplinary Nanoscience Center (iNANO)
- Center for DNA Nanotechnology (CDNA)
- Aarhus University
- DK-8000 Aarhus C
- Denmark
| | - Hüsnü Aslan
- Interdisciplinary Nanoscience Center (iNANO)
- Center for DNA Nanotechnology (CDNA)
- Aarhus University
- DK-8000 Aarhus C
- Denmark
| | - Bo Liu
- Institute of Photo-biophysics
- School of Physics and Electronics
- Henan University
- Kaifeng 475004
- China
| | - Jianguo Wang
- Interdisciplinary Nanoscience Center (iNANO)
- Center for DNA Nanotechnology (CDNA)
- Aarhus University
- DK-8000 Aarhus C
- Denmark
| | - Li Wang
- Department of Physics
- Nanchang University
- Nanchang 330031
- China
| | - Flemming Besenbacher
- Interdisciplinary Nanoscience Center (iNANO)
- Center for DNA Nanotechnology (CDNA)
- Aarhus University
- DK-8000 Aarhus C
- Denmark
| | - Mingdong Dong
- Interdisciplinary Nanoscience Center (iNANO)
- Center for DNA Nanotechnology (CDNA)
- Aarhus University
- DK-8000 Aarhus C
- Denmark
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23
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Bortolini C, Jones NC, Hoffmann SV, Wang C, Besenbacher F, Dong M. Mechanical properties of amyloid-like fibrils defined by secondary structures. NANOSCALE 2015; 7:7745-7752. [PMID: 25839069 DOI: 10.1039/c4nr05109b] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Amyloid and amyloid-like fibrils represent a generic class of highly ordered nanostructures that are implicated in some of the most fatal neurodegenerative diseases. On the other hand, amyloids, by possessing outstanding mechanical robustness, have also been successfully employed as functional biomaterials. For these reasons, physical and chemical factors driving fibril self-assembly and morphology are extensively studied - among these parameters, the secondary structures and the pH have been revealed to be crucial, since a variation in pH changes the fibril morphology and net chirality during protein aggregation. It is important to quantify the mechanical properties of these fibrils in order to help the design of effective strategies for treating diseases related to the presence of amyloid fibrils. In this work, we show that by changing pH the mechanical properties of amyloid-like fibrils vary as well. In particular, we reveal that these mechanical properties are strongly related to the content of secondary structures. We analysed and estimated the Young's modulus (E) by comparing the persistence length (Lp) - measured from the observation of TEM images by using statistical mechanics arguments - with the mechanical information provided by peak force quantitative nanomechanical property mapping (PF-QNM). The secondary structure content and the chirality are investigated by means of synchrotron radiation circular dichroism (SR-CD). Results arising from this study could be fruitfully used as a protocol to investigate other medical or engineering relevant peptide fibrils.
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Affiliation(s)
- C Bortolini
- Interdisciplinary Nanoscience Center (iNANO), Gustav Wieds 14, Building 1590, Aarhus C., Denmark.
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24
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Ma H, Fei J, Li Q, Li J. Photo-induced reversible structural transition of cationic diphenylalanine peptide self-assembly. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2015; 11:1787-1791. [PMID: 25405602 DOI: 10.1002/smll.201402140] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/19/2014] [Revised: 10/16/2014] [Indexed: 06/04/2023]
Abstract
The photo-induced self-assembly of a cationic diphenylalanine peptide (CDP) is investigated using a photoswitchable sulfonic azobenzene as the manipulating unit. A reversible structural transition between a branched structure and a vesicle-like structure is observed by alternating between UV and visible light irradiation.
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Affiliation(s)
- Hongchao Ma
- Beijing National Laboratory for Molecular Sciences, CAS Key Lab of Colloid, Interface and Chemical Thermodynamics, Institute of Chemistry, Chinese Academy of Sciences, Beijing, 100190, PR China
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25
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Xiong N, Dong XY, Zheng J, Liu FF, Sun Y. Design of LVFFARK and LVFFARK-functionalized nanoparticles for inhibiting amyloid β-protein fibrillation and cytotoxicity. ACS APPLIED MATERIALS & INTERFACES 2015; 7:5650-5662. [PMID: 25700145 DOI: 10.1021/acsami.5b00915] [Citation(s) in RCA: 115] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Aggregation of amyloid β-protein (Aβ) into amyloid oligomers and fibrils is pathologically linked to Alzheimer's disease (AD). Hence, the inhibition of Aβ aggregation is essential for the prevention and treatment of AD, but the development of potent agents capable of inhibiting Aβ fibrillogenesis has posed significant challenges. Herein, we designed Ac-LVFFARK-NH2 (LK7) by incorporating two positively charged residues, R and K, into the central hydrophobic fragment of Aβ17-21 (LVFFA) and examined its inhibitory effect on Aβ42 aggregation and cytotoxicity by extensive physical, biophysical, and biological analyses. LK7 was observed to inhibit Aβ42 fibrillogenesis in a dose-dependent manner, but its strong self-assembly characteristic also resulted in high cytotoxicity. In order to prevent the cytotoxicity that resulted from the self-assembly of LK7, the peptide was then conjugated to the surface of poly(lactic-co-glycolic acid) (PLGA) nanoparticles (NPs) to fabricate a nanosized inhibitor, LK7@PLGA-NPs. It was found that LK7@PLGA-NPs had little cytotoxicity because the self-assembly of the LK7 conjugated on the NPs was completely inhibited. Moreover, the NPs-based inhibitor showed remarkable inhibitory capability against Aβ42 aggregation and significantly alleviated its cytotoxicity at a low LK7@PLGA-NPs concentration of 20 μg/mL. At the same peptide concentration, free LK7 showed little inhibitory effect. It is considered that several synergetic effects contributed to the strong inhibitory ability of LK7@PLGA-NPs, including the enhanced interactions between Aβ42 and LK7@PLGA-NPs brought on by inhibiting LK7 self-assembly, restricting conformational changes of Aβ42, and thus redirecting Aβ42 aggregation into unstructured, off-pathway aggregates. The working mechanisms of the inhibitory effects of LK7 and LK7@PLGA-NPs on Aβ42 aggregation were proposed based on experimental observations. This work provides new insights into the design and development of potent NPs-based inhibitors against Aβ aggregation and cytotoxicity.
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Affiliation(s)
- Neng Xiong
- †Department of Biochemical Engineering and Key Laboratory of Systems Bioengineering of the Ministry of Education, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
| | - Xiao-Yan Dong
- †Department of Biochemical Engineering and Key Laboratory of Systems Bioengineering of the Ministry of Education, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
| | - Jie Zheng
- ‡Department of Chemical and Biomolecular Engineering, The University of Akron, Akron, Ohio 44325, United States
| | - Fu-Feng Liu
- †Department of Biochemical Engineering and Key Laboratory of Systems Bioengineering of the Ministry of Education, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
| | - Yan Sun
- †Department of Biochemical Engineering and Key Laboratory of Systems Bioengineering of the Ministry of Education, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
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26
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Atomistic characterization of binding modes and affinity of peptide inhibitors to amyloid-β protein. Front Chem Sci Eng 2014. [DOI: 10.1007/s11705-014-1454-6] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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27
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Marchesan S, Easton CD, Styan KE, Waddington LJ, Kushkaki F, Goodall L, McLean KM, Forsythe JS, Hartley PG. Chirality effects at each amino acid position on tripeptide self-assembly into hydrogel biomaterials. NANOSCALE 2014; 6:5172-80. [PMID: 24700146 DOI: 10.1039/c3nr06752a] [Citation(s) in RCA: 108] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Hydrogels formed by ultrashort peptides are emerging as cost-effective materials for cell culture. However, L-peptides are labile to proteases, while their D-isomers are thought to not support cell growth as well. In contrast, the self-assembly behaviour and biological performance of heterochiral peptides (i.e., made of both d and l amino acids) are largely unknown. In this study, we evaluate the effects of amino acid chirality on tripeptide self-assembly and hydrogelation at physiological pH, and cytocompatibility in fibroblast cell culture. A series of uncapped hydrophobic tripeptides with all combinations of d, l amino acids was prepared, tested for self-assembly under physiological conditions, and analysed by circular dichroism, FT-IR, cryo-TEM, AFM, and Thioflavin T fluorescence imaging. Amino acid chirality has a profound effect on the peptides' supramolecular behaviour. Only selected isomers form hydrogels, and of amyloid structure, as confirmed by rheology and XRD. Importantly, they are able to maintain the viability and proliferation of fibroblasts in vitro. This study identifies two heterochiral gels that perform well in cell culture and will assist in the design of innovative and cost-effective peptide gel biomaterials.
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Affiliation(s)
- S Marchesan
- CSIRO Materials Science and Engineering, Bayview Avenue, Clayton, VIC 3168, Australia.
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28
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Zhang M, Mao X, Yu Y, Wang CX, Yang YL, Wang C. Nanomaterials for reducing amyloid cytotoxicity. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2013; 25:3780-801. [PMID: 23722464 DOI: 10.1002/adma.201301210] [Citation(s) in RCA: 132] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/15/2013] [Indexed: 05/20/2023]
Abstract
This review is intended to reflect the recent progress on therapeutic applications of nanomaterials in amyloid diseases. The progress on anti-amyloid functions of various nanomaterials including inorganic nanoparticles, polymeric nanoparticles, carbon nanomaterials and biomolecular aggregates, is reviewed and discussed. The main functionalization strategies for general nanoparticle modifications are reviewed for potential applications of targeted therapeutics. The interaction mechanisms between amyloid peptides and nanomaterials are discussed from the perspectives of dominant interactions and kinetics. The encapsulation of anti-amyloid drugs, targeted drug delivery, controlled drug release and drug delivery crossing blood brain barrier by application of nanomaterials would also improve the therapeutics of amyloid diseases.
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Affiliation(s)
- Min Zhang
- National Center for Nanoscience and Technology, Beijing 100190, China
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Zhou X, Zhang Y, Zhang F, Pillai S, Liu J, Li R, Dai B, Li B, Zhang Y. Hierarchical ordering of amyloid fibrils on the mica surface. NANOSCALE 2013; 5:4816-4822. [PMID: 23613010 DOI: 10.1039/c3nr00886j] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
The aggregation of amyloid peptides into ordered fibrils is closely associated with many neurodegenerative diseases. The surfaces of cell membranes and biomolecules are believed to play important roles in modulation of peptide aggregation under physiological conditions. Experimental studies of fibrillogenesis at the molecular level in vivo, however, are inherently challenging, and the molecular mechanisms of how surface affects the structure and ordering of amyloid fibrils still remain elusive. Herein we have investigated the aggregation behavior of insulin peptides within water films adsorbed on the mica surface. AFM measurements revealed that the structure and orientation of fibrils were significantly affected by the mica lattice and the peptide concentration. At low peptide concentration (~0.05 mg mL(-1)), there appeared a single layer of short and well oriented fibrils with a mean height of 1.6 nm. With an increase of concentration to a range of 0.2-2.0 mg mL(-1), a different type of fibrils with a mean height of 3.8 nm was present. Interestingly, when the concentration was above 2.0 mg mL(-1), the thicker fibrils exhibited two-dimensional liquid-crystal-like ordering probably caused by the combination of entropic and electrostatic forces. These results could help us gain better insight into the effects of the substrate on amyloid fibrillation.
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Affiliation(s)
- Xingfei Zhou
- Department of Physics, Ningbo University, Ningbo, 315211, China
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Tanaka M, Abiko S, Koshikawa N, Kinoshita T. A peptide-PEG conjugate-directed nanoperiodic hierarchical architecture by spatial selective self-assembly at the solid/water interface. RSC Adv 2013. [DOI: 10.1039/c3ra40390d] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023] Open
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Ma H, Fei J, Cui Y, Zhao J, Wang A, Li J. Manipulating assembly of cationic dipeptides using sulfonic azobenzenes. Chem Commun (Camb) 2013; 49:9956-8. [DOI: 10.1039/c3cc45514a] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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32
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Silly F. Moiré pattern induced by the electronic coupling between 1-octanol self-assembled monolayers and graphite surface. NANOTECHNOLOGY 2012; 23:225603. [PMID: 22572595 DOI: 10.1088/0957-4484/23/22/225603] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
Two-dimensional self-assembly of 1-octanol molecules on a graphite surface is investigated using scanning tunneling microscopy (STM) at the solid/liquid interface. STM images reveal that this molecule self-assembles into a compact hydrogen-bonded herringbone nanoarchitecture. Molecules are preferentially arranged in a head-to-head and tail-to-tail fashion. A Moiré pattern appears in the STM images when the 1-octanol layer is covering the graphite surface. The large Moiré stripes are perpendicular to the 1-octanol lamellae. Interpretation of the STM images suggests that the Moiré periodicity is governed by the electronic properties of the graphite surface and the 1-octanol layer periodicity.
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Affiliation(s)
- Fabien Silly
- CEA, IRAMIS, SPCSI, Hybrid Magnetic Nanoarchitectures, F-91191 Gif sur Yvette, France
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Zhou X, Tan J, Zheng L, Pillai S, Li B, Xu P, Zhang B, Zhang Y. The opposite effects of Cu(ii) and Fe(iii) on the assembly of glucagon amyloid fibrils. RSC Adv 2012. [DOI: 10.1039/c2ra20651j] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023] Open
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