1
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Dey A, Verma A, Bhaskar U, Sarkar B, Kallianpur M, Vishvakarma V, Das AK, Garai K, Mukherjee O, Ishii K, Tahara T, Maiti S. A Toxicogenic Interaction between Intracellular Amyloid-β and Apolipoprotein-E. ACS Chem Neurosci 2024; 15:1265-1275. [PMID: 38421952 DOI: 10.1021/acschemneuro.4c00048] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/02/2024] Open
Abstract
Alzheimer's disease (AD) is associated with the aggregation of amyloid β (Aβ) and tau proteins. Why ApoE variants are significant genetic risk factors remains a major unsolved puzzle in understanding AD, although intracellular interactions with ApoE are suspected to play a role. Here, we show that specific changes in the fluorescence lifetime of fluorescently tagged small Aβ oligomers in rat brain cells correlate with the cellular ApoE content. An inhibitor of the Aβ-ApoE interaction suppresses these changes and concomitantly reduces Aβ toxicity in a dose-dependent manner. Single-molecule techniques show changes both in the conformation and in the stoichiometry of the oligomers. Neural stem cells derived from hiPSCs of Alzheimer's patients also exhibit these fluorescence lifetime changes. We infer that intracellular interaction with ApoE modifies the N-terminus of the Aβ oligomers, inducing changes in their stoichiometry, membrane affinity, and toxicity. These changes can be directly imaged in live cells and can potentially be used as a rapid and quantitative cellular assay for AD drug discovery.
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Affiliation(s)
- Arpan Dey
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Mumbai 400005, India
| | - Aditi Verma
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Mumbai 400005, India
| | - Uchit Bhaskar
- Institute of Stem Cell Science and Regenerative Medicine, Bangalore 560065, India
| | - Bidyut Sarkar
- Molecular Spectroscopy Laboratory, RIKEN, Wako, Saitama 3510198, Japan
| | - Mamata Kallianpur
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Mumbai 400005, India
| | - Vicky Vishvakarma
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Mumbai 400005, India
| | - Anand Kant Das
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Mumbai 400005, India
| | - Kanchan Garai
- Tata Institute of Fundamental Research, Hyderabad 500107, India
| | - Odity Mukherjee
- Institute of Stem Cell Science and Regenerative Medicine, Bangalore 560065, India
| | - Kunihiko Ishii
- Molecular Spectroscopy Laboratory, RIKEN, Wako, Saitama 3510198, Japan
| | - Tahei Tahara
- Molecular Spectroscopy Laboratory, RIKEN, Wako, Saitama 3510198, Japan
| | - Sudipta Maiti
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Mumbai 400005, India
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2
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Vishvakarma V, Maiti S. Measuring the Size and Spontaneous Fluctuations of Amyloid Aggregates with Fluorescence Correlation Spectroscopy. Methods Mol Biol 2022; 2538:35-54. [PMID: 35951292 DOI: 10.1007/978-1-0716-2529-3_4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Bacterial amyloids decorate the cell surface of many bacteria by forming functional amyloid fibers. These amyloids have structural and biochemical similarities with many disease-related amyloids in eukaryotes. Amyloid aggregation starts at the individual monomer level, and the end product is the amyloid fibril. The process of amyloid aggregation involves a continuous increase of the aggregate size, and therefore size is a critical parameter to measure in aggregation experiments. Also, our understanding of the aggregation process, and our ability to design interventions, can benefit from a measurement of the conformational dynamics of proteins undergoing aggregation. Fluorescence correlation spectroscopy (FCS) is perhaps the most sensitive and rapid technique available currently for this purpose. It can measure the average size and the size distribution of molecules and aggregates down to sub-nm length scales and can also measure fast nanosecond time-scale conformational dynamics, all in an equilibrium solution. FCS achieves this by measuring the fluorescence intensity fluctuations of freely diffusing protein molecules in an optically defined microscopic probe volume in a solution. Here, we present a set of instructions for effectively measuring the size and dynamics of amyloid aggregates with FCS.
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Affiliation(s)
- Vicky Vishvakarma
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Mumbai, India
| | - Sudipta Maiti
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Mumbai, India.
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3
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Dey S, Surendran D, Engberg O, Gupta A, Fanibunda SE, Das A, Maity BK, Dey A, Visvakarma V, Kallianpur M, Scheidt HA, Walker G, Vaidya VA, Huster D, Maiti S. Altered Membrane Mechanics Provides a Receptor-Independent Pathway for Serotonin Action. Chemistry 2021; 27:7533-7541. [PMID: 33502812 PMCID: PMC8252079 DOI: 10.1002/chem.202100328] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2021] [Indexed: 12/20/2022]
Abstract
Serotonin, an important signaling molecule in humans, has an unexpectedly high lipid membrane affinity. The significance of this finding has evoked considerable speculation. Here we show that membrane binding by serotonin can directly modulate membrane properties and cellular function, providing an activity pathway completely independent of serotonin receptors. Atomic force microscopy shows that serotonin makes artificial lipid bilayers softer, and induces nucleation of liquid disordered domains inside the raft-like liquid-ordered domains. Solid-state NMR spectroscopy corroborates this data at the atomic level, revealing a homogeneous decrease in the order parameter of the lipid chains in the presence of serotonin. In the RN46A immortalized serotonergic neuronal cell line, extracellular serotonin enhances transferrin receptor endocytosis, even in the presence of broad-spectrum serotonin receptor and transporter inhibitors. Similarly, it increases the membrane binding and internalization of oligomeric peptides. Our results uncover a mode of serotonin-membrane interaction that can potentiate key cellular processes in a receptor-independent fashion.
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Affiliation(s)
- Simli Dey
- Department of Chemical SciencesTata Institute of Fundamental ResearchHomi Bhabha Road, ColabaMumbai400005India
| | - Dayana Surendran
- Department of Chemical SciencesTata Institute of Fundamental ResearchHomi Bhabha Road, ColabaMumbai400005India
| | - Oskar Engberg
- Institute of Medical Physics and BiophysicsUniversity of LeipzigHärtelstr. 16–1804107LeipzigGermany
| | - Ankur Gupta
- Department of Chemical SciencesTata Institute of Fundamental ResearchHomi Bhabha Road, ColabaMumbai400005India
| | - Sashaina E. Fanibunda
- Department of Biological SciencesTata Institute of Fundamental ResearchHomi Bhabha Road, ColabaMumbai400005India
- Kasturba Health SocietyMedical Research CenterMumbaiIndia
| | - Anirban Das
- Department of Chemical SciencesTata Institute of Fundamental ResearchHomi Bhabha Road, ColabaMumbai400005India
| | - Barun Kumar Maity
- Department of Chemical SciencesTata Institute of Fundamental ResearchHomi Bhabha Road, ColabaMumbai400005India
| | - Arpan Dey
- Department of Chemical SciencesTata Institute of Fundamental ResearchHomi Bhabha Road, ColabaMumbai400005India
| | - Vicky Visvakarma
- Department of Chemical SciencesTata Institute of Fundamental ResearchHomi Bhabha Road, ColabaMumbai400005India
| | - Mamata Kallianpur
- Department of Chemical SciencesTata Institute of Fundamental ResearchHomi Bhabha Road, ColabaMumbai400005India
| | - Holger A. Scheidt
- Institute of Medical Physics and BiophysicsUniversity of LeipzigHärtelstr. 16–1804107LeipzigGermany
| | - Gilbert Walker
- Department of ChemistryUniversity of TorontoTorontoOntarioM5S3H6Canada
| | - Vidita A. Vaidya
- Department of Biological SciencesTata Institute of Fundamental ResearchHomi Bhabha Road, ColabaMumbai400005India
| | - Daniel Huster
- Department of Chemical SciencesTata Institute of Fundamental ResearchHomi Bhabha Road, ColabaMumbai400005India
- Institute of Medical Physics and BiophysicsUniversity of LeipzigHärtelstr. 16–1804107LeipzigGermany
| | - Sudipta Maiti
- Department of Chemical SciencesTata Institute of Fundamental ResearchHomi Bhabha Road, ColabaMumbai400005India
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4
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Smeralda W, Since M, Cardin J, Corvaisier S, Lecomte S, Cullin C, Malzert-Fréon A. β-Amyloid peptide interactions with biomimetic membranes: A multiparametric characterization. Int J Biol Macromol 2021; 181:769-777. [PMID: 33811932 DOI: 10.1016/j.ijbiomac.2021.03.107] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2020] [Revised: 02/14/2021] [Accepted: 03/19/2021] [Indexed: 10/21/2022]
Abstract
Alzheimer's disease is the most common form of senile dementia in the world, and amyloid β peptide1-42 (Aβ1-42) is one of its two principal biological hallmarks. While interactome concept was getting forward the scientific community, we proposed that the study of the molecular interactions of amyloid β peptide with the biological membranes will allow to highlight underlying mechanisms responsive of AD. We have developed two simple liposomal formulations (phosphatidylcholine, cholesterol, phosphatidylglycerol) mimicking neuronal cell membrane (composition, charge, curvature radius). Interactions with Aβ1-42 and mutant oG37C, a stable oligomeric form of the peptide, were characterized according to a simple multiparametric procedure based on ThT fluorescence, liposome leakage assay, ATR-FTIR spectroscopy. Kinetic aggregation, membrane damage and peptide conformation provided our first methodologic bases to develop an original model to describe interactions of Aβ peptide and lipids.
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Affiliation(s)
| | - Marc Since
- Normandie Univ, UNICAEN, CERMN, 14000 Caen, France.
| | - Julien Cardin
- NIMPH Team, CIMAP CNRS UMR 6252, EnsiCaen-UNICAEN-CEA, 14050 Caen, France.
| | | | - Sophie Lecomte
- CBMN, CNRS UMR 5248, Univ. Bordeaux, 33600 Pessac, France.
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5
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Khambete MP, Khare LP, Kapadia AB, Degani MS. Exploring the potential of pyrazoline containing molecules as Aβ aggregation inhibitors in Alzheimer's disease. Drug Metab Pers Ther 2020; 35:dmpt-2019-0031. [PMID: 32776895 DOI: 10.1515/dmpt-2019-0031] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2019] [Accepted: 03/30/2020] [Indexed: 11/15/2022]
Abstract
Objectives Alzheimer's disease (AD) is a chronic and progressive neurodegenerative disease in which one of the most prominent pathological features is accumulation of amyloid (Aβ) plaques. This occurs due to the process of aggregation from monomeric to polymeric forms of Aβ peptide and thus represents one of the attractive targets to treat AD. Methods After initial evaluation of a set of molecules containing N-acetylpyrazoline moiety flanked by aromatic rings on both sides as Aβ aggregation inhibitors, the most potent molecules were further investigated for mechanistic insights. These were carried out by employing techniques such as circular dichroism (CD) spectroscopy, transmission electron microscopy (TEM), in vitro PAMPA-BBB (Blood-Brain Barrier) assay and cytotoxicity evaluation. Results Two molecules among the exploratory set displayed Aβ aggregation inhibition comparable to standard curcumin. Among the follow-up molecules, several molecules displayed more inhibition than curcumin. These molecules displayed good inhibitory activity even at lower concentrations. CD and TEM confirmed the mechanism of Aβ aggregation. These molecules were found to alleviate Aβ induced cytotoxicity. BBB penetration studies highlighted the potential of these molecules to reach central nervous system (CNS). Conclusions Thus, several promising Aβ-aggregation inhibitors were obtained as a result of this study.
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Affiliation(s)
- Mihir Pramod Khambete
- Department of Pharmaceutical Sciences and Technology, Institute of Chemical Technology, Mumbai, India
| | - Lalit Pramod Khare
- Department of Pharmaceutical Sciences and Technology, Institute of Chemical Technology, Mumbai, India
| | - Akshay Bhupendra Kapadia
- Department of Pharmaceutical Sciences and Technology, Institute of Chemical Technology, Mumbai, India
| | - Mariam Sohel Degani
- Department of Pharmaceutical Sciences and Technology, Institute of Chemical Technology, Mumbai, India
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6
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Maity BK, Das AK, Dey S, Moorthi UK, Kaur A, Dey A, Surendran D, Pandit R, Kallianpur M, Chandra B, Chandrakesan M, Arumugam S, Maiti S. Ordered and Disordered Segments of Amyloid-β Drive Sequential Steps of the Toxic Pathway. ACS Chem Neurosci 2019; 10:2498-2509. [PMID: 30763064 DOI: 10.1021/acschemneuro.9b00015] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
Abstract
While the roles of intrinsically disordered protein domains in driving interprotein interactions are increasingly well-appreciated, the mechanism of toxicity of disease-causing disordered proteins remains poorly understood. A prime example is Alzheimer's disease (AD) associated amyloid beta (Aβ). Aβ oligomers are highly toxic partially structured peptide assemblies with a distinct ordered region (residues ∼10-40) and a shorter disordered region (residues ∼1-9). Here, we investigate the role of this disordered domain and its relation to the ordered domain in the manifestation of toxicity through a set of Aβ fragments and stereoisomers designed for this purpose. We measure their effects on lipid membranes and cultured neurons, probing their toxicity, intracellular distributions, and specific molecular interactions using the techniques of confocal imaging, lattice light sheet imaging, fluorescence lifetime imaging, and fluorescence correlation spectroscopy. Remarkably, we find that neither part-Aβ10-40 or Aβ1-9, is toxic by itself. The ordered part (Aβ10-40) is the major determinant of how Aβ attaches to lipid bilayers, enters neuronal cells, and localizes primarily in the late endosomal compartments. However, once Aβ enters the cell, it is the disordered part (only when it is connected to the rest of the peptide) that has a strong and stereospecific interaction with an unknown cellular component, as demonstrated by distinct changes in the fluorescence lifetime of a fluorophore attached to the N-terminal. This interaction appears to commit Aβ to the toxic pathway. Our findings correlate well with Aβ sites of familial AD mutations, a significant fraction of which cluster in the disordered region. We conclude that, while the ordered region dictates attachment and cellular entry, the key to toxicity lies in the ordered part presenting the disordered part for a specific cellular interaction.
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Affiliation(s)
- Barun Kumar Maity
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Anand Kant Das
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Simli Dey
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | | | | | - Arpan Dey
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Dayana Surendran
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Rucha Pandit
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Mamata Kallianpur
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Bappaditya Chandra
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Muralidharan Chandrakesan
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | | | - Sudipta Maiti
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
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7
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Rawat A, Maity BK, Chandra B, Maiti S. Aggregation-induced conformation changes dictate islet amyloid polypeptide (IAPP) membrane affinity. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2018; 1860:1734-1740. [DOI: 10.1016/j.bbamem.2018.03.027] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2018] [Revised: 03/20/2018] [Accepted: 03/21/2018] [Indexed: 11/30/2022]
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8
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Maity BK, Vishvakarma V, Surendran D, Rawat A, Das A, Pramanik S, Arfin N, Maiti S. Spontaneous Fluctuations Can Guide Drug Design Strategies for Structurally Disordered Proteins. Biochemistry 2018; 57:4206-4213. [PMID: 29928798 DOI: 10.1021/acs.biochem.8b00504] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Structure-based "rational" drug design strategies fail for diseases associated with intrinsically disordered proteins (IDPs). However, structural disorder allows large-amplitude spontaneous intramolecular dynamics in a protein. We demonstrate a method that exploits this dynamics to provide quantitative information about the degree of interaction of an IDP with other molecules. A candidate ligand molecule may not bind strongly, but even momentary interactions can be expected to perturb the fluctuations. We measure the amplitude and frequency of the equilibrium fluctuations of fluorescently labeled small oligomers of hIAPP (an IDP associated with type II diabetes) in a physiological solution, using nanosecond fluorescence cross-correlation spectroscopy. We show that the interterminal distance fluctuates at a characteristic time scale of 134 ± 10 ns, and 6.4 ± 0.2% of the population is in the "closed" (quenched) state at equilibrium. These fluctuations are affected in a dose-dependent manner by a series of small molecules known to reduce the toxicity of various amyloid peptides. The degree of interaction increases in the following order: resveratrol < epicatechin ∼ quercetin < Congo red < epigallocatechin 3-gallate. Such ordering can provide a direction for exploring the chemical space for finding stronger-binding ligands. We test the biological relevance of these measurements by measuring the effect of these molecules on the affinity of hIAPP for lipid vesicles and cell membranes. We find that the ability of a molecule to modulate intramolecular fluctuations correlates well with its ability to lower membrane affinity. We conclude that structural disorder may provide new avenues for rational drug design for IDPs.
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Affiliation(s)
- Barun Kumar Maity
- Department of Chemical Sciences , Tata Institute of Fundamental Research , Homi Bhabha Road , Colaba, Mumbai 400005 , India
| | - Vicky Vishvakarma
- Department of Chemical Sciences , Tata Institute of Fundamental Research , Homi Bhabha Road , Colaba, Mumbai 400005 , India
| | - Dayana Surendran
- Department of Chemical Sciences , Tata Institute of Fundamental Research , Homi Bhabha Road , Colaba, Mumbai 400005 , India
| | - Anoop Rawat
- Department of Chemical Sciences , Tata Institute of Fundamental Research , Homi Bhabha Road , Colaba, Mumbai 400005 , India
| | - Anirban Das
- Department of Chemical Sciences , Tata Institute of Fundamental Research , Homi Bhabha Road , Colaba, Mumbai 400005 , India
| | - Shreya Pramanik
- UM-DAE Centre for Excellence in Basic Sciences , University of Mumbai , Kalina, Mumbai 400098 , India
| | - Najmul Arfin
- Center for Interdisciplinary Research in Basic Sciences , Jamia Milia Islamia , New Delhi 110025 , India
| | - Sudipta Maiti
- Department of Chemical Sciences , Tata Institute of Fundamental Research , Homi Bhabha Road , Colaba, Mumbai 400005 , India
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9
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Dey S, Gupta A, Bhowmik D, Das A, Rawat A, Maiti S. Lipid Membrane Interaction of Amyloidogenic Peptides. FASEB J 2018. [DOI: 10.1096/fasebj.2018.32.1_supplement.lb178] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Simli Dey
- Chemical ScienceTata Institute of Fundamental ResearchMumbaiIndia
| | - Ankur Gupta
- Chemical ScienceTata Institute of Fundamental ResearchMumbaiIndia
| | - Debanjan Bhowmik
- Chemical ScienceTata Institute of Fundamental ResearchMumbaiIndia
| | - Anirban Das
- Chemical ScienceTata Institute of Fundamental ResearchMumbaiIndia
| | - Anoop Rawat
- Chemical ScienceTata Institute of Fundamental ResearchMumbaiIndia
| | - Sudipta Maiti
- Chemical ScienceTata Institute of Fundamental ResearchMumbaiIndia
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10
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Major Reaction Coordinates Linking Transient Amyloid-β Oligomers to Fibrils Measured at Atomic Level. Biophys J 2017; 113:805-816. [PMID: 28834717 DOI: 10.1016/j.bpj.2017.06.068] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2017] [Revised: 06/22/2017] [Accepted: 06/22/2017] [Indexed: 11/22/2022] Open
Abstract
The structural underpinnings for the higher toxicity of the oligomeric intermediates of amyloidogenic peptides, compared to the mature fibrils, remain unknown at present. The transient nature and heterogeneity of the oligomers make it difficult to follow their structure. Here, using vibrational and solid-state nuclear magnetic resonance spectroscopy, and molecular dynamics simulations, we show that freely aggregating Aβ40 oligomers in physiological solutions have an intramolecular antiparallel configuration that is distinct from the intermolecular parallel β-sheet structure observed in mature fibrils. The intramolecular hydrogen-bonding network flips nearly 90°, and the two β-strands of each monomeric unit move apart, to give rise to the well-known intermolecular in-register parallel β-sheet structure in the mature fibrils. Solid-state nuclear magnetic resonance distance measurements capture the interstrand separation within monomer units during the transition from the oligomer to the fibril form. We further find that the D23-K28 salt-bridge, a major feature of the Aβ40 fibrils and a focal point of mutations linked to early onset Alzheimer's disease, is not detectable in the small oligomers. Molecular dynamics simulations capture the correlation between changes in the D23-K28 distance and the flipping of the monomer secondary structure between antiparallel and parallel β-sheet architectures. Overall, we propose interstrand separation and salt-bridge formation as key reaction coordinates describing the structural transition of the small Aβ40 oligomers to fibrils.
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11
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Chandra B, Halder S, Adler J, Korn A, Huster D, Maiti S. Emerging structural details of transient amyloid-β oligomers suggest designs for effective small molecule modulators. Chem Phys Lett 2017. [DOI: 10.1016/j.cplett.2017.02.070] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
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12
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Chandra B, Korn A, Maity BK, Adler J, Rawat A, Krueger M, Huster D, Maiti S. Stereoisomers Probe Steric Zippers in Amyloid-β. J Phys Chem B 2017; 121:1835-1842. [PMID: 28140589 DOI: 10.1021/acs.jpcb.6b12332] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Shape complementarity between close-packed residues plays a critical role in the amyloid aggregation process. Here, we probe such "steric zipper" interactions in amyloid-β (Aβ40), whose aggregation is linked to Alzheimer's disease, by replacing natural residues by their stereoisomers. Such mutations are expected to specifically destabilize the shape sensitive "packing" interactions, which may potentially increase their solubility and change other properties. We study the stereomutants DF19 and DL34 and also the DA2/DF4/DH6/DS8 mutant of Aβ40. F19-L34 is a critical contact in a tightly packed region of Aβ, while residues 1-9 are known to be disordered. While both DF19 and DL34 slow down the kinetics of aggregation and form amyloid fibrils efficiently, only DL34 increases the final solubility. DF19 gives rise to additional off-pathway aggregation which results in large, kinetically stable aggregates, and has lower net solubility. DA2/DF4/DH6/DS8 does not have an effect on the kinetics or the solubility. Notably, both DF19 and DL34 oligomers have a significantly lower level of interactions with lipid vesicles and live cells. We conclude that stereoisomers can cause complex site dependent changes in amyloid properties, and provide an effective tool to determine the role of individual residues in shaping the packed interiors of amyloid aggregates.
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Affiliation(s)
- Bappaditya Chandra
- Department of Chemical Science, Tata Institute of Fundamental Research , Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Alexander Korn
- Institut für Medizinische Physik und Biophysik, Universität Leipzig , Härtelstrasse 16-18, D-04107 Leipzig, Germany
| | - Barun Kumar Maity
- Department of Chemical Science, Tata Institute of Fundamental Research , Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Juliane Adler
- Institut für Medizinische Physik und Biophysik, Universität Leipzig , Härtelstrasse 16-18, D-04107 Leipzig, Germany
| | - Anoop Rawat
- Department of Chemical Science, Tata Institute of Fundamental Research , Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Martin Krueger
- Institut für Medizinische Physik und Biophysik, Universität Leipzig , Härtelstrasse 16-18, D-04107 Leipzig, Germany.,Institut für Anatomie, Universität Leipzig , Liebigstr. 13, D-04103 Leipzig, Germany
| | - Daniel Huster
- Institut für Medizinische Physik und Biophysik, Universität Leipzig , Härtelstrasse 16-18, D-04107 Leipzig, Germany
| | - Sudipta Maiti
- Department of Chemical Science, Tata Institute of Fundamental Research , Homi Bhabha Road, Colaba, Mumbai 400005, India
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13
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Das AK, Pandit R, Maiti S. Effect of amyloids on the vesicular machinery: implications for somatic neurotransmission. Philos Trans R Soc Lond B Biol Sci 2016; 370:rstb.2014.0187. [PMID: 26009766 DOI: 10.1098/rstb.2014.0187] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
Abstract
Certain neurodegenerative diseases are thought to be initiated by the aggregation of amyloidogenic proteins. However, the mechanism underlying toxicity remains obscure. Most of the suggested mechanisms are generic in nature and do not directly explain the neuron-type specific lesions observed in many of these diseases. Some recent reports suggest that the toxic aggregates impair the synaptic vesicular machinery. This may lead to an understanding of the neuron-type specificity observed in these diseases. A disruption of the vesicular machinery can also be deleterious for extra-synaptic, especially somatic, neurotransmission (common in serotonergic and dopaminergic systems which are specifically affected in Alzheimer's disease (AD) and Parkinson's disease (PD), respectively), though this relationship has remained unexplored. In this review, we discuss amyloid-induced damage to the neurotransmitter vesicular machinery, with an eye on the possible implications for somatic exocytosis. We argue that the larger size of the system, and the availability of multi-photon microscopy techniques for directly visualizing monoamines, make the somatic exocytosis machinery a more tractable model for understanding the effect of amyloids on all types of vesicular neurotransmission. Indeed, exploring this neglected connection may not just be important, it may be a more fruitful route for understanding AD and PD.
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Affiliation(s)
- Anand Kant Das
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai, Maharashtra 400005, India
| | - Rucha Pandit
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai, Maharashtra 400005, India
| | - Sudipta Maiti
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai, Maharashtra 400005, India
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14
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Zhou Y, Liu L, Hao Y, Xu M. Detection of Aβ Monomers and Oligomers: Early Diagnosis of Alzheimer's Disease. Chem Asian J 2016; 11:805-17. [DOI: 10.1002/asia.201501355] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2015] [Revised: 12/27/2015] [Indexed: 12/11/2022]
Affiliation(s)
- Yanli Zhou
- Henan Key Laboratory Cultivation Base of Nanobiological Analytical Chemistry; College of Chemistry and Chemical Engineering; Shangqiu Normal University; Shangqiu 476000 P. R. China
| | - Lantao Liu
- Henan Key Laboratory Cultivation Base of Nanobiological Analytical Chemistry; College of Chemistry and Chemical Engineering; Shangqiu Normal University; Shangqiu 476000 P. R. China
- College of Chemistry and Molecular Engineering; Zhengzhou University; Zhengzhou 450001 P. R. China
| | - Yuanqiang Hao
- Henan Key Laboratory Cultivation Base of Nanobiological Analytical Chemistry; College of Chemistry and Chemical Engineering; Shangqiu Normal University; Shangqiu 476000 P. R. China
| | - Maotian Xu
- Henan Key Laboratory Cultivation Base of Nanobiological Analytical Chemistry; College of Chemistry and Chemical Engineering; Shangqiu Normal University; Shangqiu 476000 P. R. China
- College of Chemistry and Molecular Engineering; Zhengzhou University; Zhengzhou 450001 P. R. China
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15
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Single Molecule Tools for Probing Protein Aggregation. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES INDIA SECTION A-PHYSICAL SCIENCES 2015. [DOI: 10.1007/s40010-015-0248-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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16
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Bhowmik D, Mote KR, MacLaughlin CM, Biswas N, Chandra B, Basu JK, Walker GC, Madhu PK, Maiti S. Cell-Membrane-Mimicking Lipid-Coated Nanoparticles Confer Raman Enhancement to Membrane Proteins and Reveal Membrane-Attached Amyloid-β Conformation. ACS NANO 2015; 9:9070-7. [PMID: 26391443 DOI: 10.1021/acsnano.5b03175] [Citation(s) in RCA: 69] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Identifying the structures of membrane bound proteins is critical to understanding their function in healthy and diseased states. We introduce a surface enhanced Raman spectroscopy technique which can determine the conformation of membrane-bound proteins, at low micromolar concentrations, and also in the presence of a substantial membrane-free fraction. Unlike conventional surface enhanced Raman spectroscopy, our approach does not require immobilization of molecules, as it uses spontaneous binding of proteins to lipid bilayer-encapsulated Ag nanoparticles. We apply this technique to probe membrane-attached oligomers of Amyloid-β40 (Aβ40), whose conformation is keenly sought in the context of Alzheimer's disease. Isotope-shifts in the Raman spectra help us obtain secondary structure information at the level of individual residues. Our results show the presence of a β-turn, flanked by two β-sheet regions. We use solid-state NMR data to confirm the presence of the β-sheets in these regions. In the membrane-attached oligomer, we find a strongly contrasting and near-orthogonal orientation of the backbone H-bonds compared to what is found in the mature, less-toxic Aβ fibrils. Significantly, this allows a "porin" like β-barrel structure, providing a structural basis for proposed mechanisms of Aβ oligomer toxicity.
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Affiliation(s)
- Debanjan Bhowmik
- Department of Chemical Sciences, Tata Institute of Fundamental Research , Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Kaustubh R Mote
- TIFR Centre for Interdisciplinary Sciences , 21 Brundavan Colony, Narsinghi, Hyderabad 500075, India
| | - Christina M MacLaughlin
- Department of Chemistry, Lash Miller Laboratories, University of Toronto , Toronto, ON M5S 3H6, Canada
| | - Nupur Biswas
- Department of Physics, Indian Institute of Science , Bengaluru 560012, India
| | - Bappaditya Chandra
- Department of Chemical Sciences, Tata Institute of Fundamental Research , Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Jaydeep K Basu
- Department of Physics, Indian Institute of Science , Bengaluru 560012, India
| | - Gilbert C Walker
- Department of Chemistry, Lash Miller Laboratories, University of Toronto , Toronto, ON M5S 3H6, Canada
| | - Perunthiruthy K Madhu
- Department of Chemical Sciences, Tata Institute of Fundamental Research , Homi Bhabha Road, Colaba, Mumbai 400005, India
- TIFR Centre for Interdisciplinary Sciences , 21 Brundavan Colony, Narsinghi, Hyderabad 500075, India
| | - Sudipta Maiti
- Department of Chemical Sciences, Tata Institute of Fundamental Research , Homi Bhabha Road, Colaba, Mumbai 400005, India
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17
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Das AK, Rawat A, Bhowmik D, Pandit R, Huster D, Maiti S. An early folding contact between Phe19 and Leu34 is critical for amyloid-β oligomer toxicity. ACS Chem Neurosci 2015; 6:1290-5. [PMID: 25951510 DOI: 10.1021/acschemneuro.5b00074] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Abstract
Small hydrophobic oligomers of aggregation-prone proteins are thought to be generically toxic. Here we examine this view by perturbing an early folding contact between Phe19 and Leu34 formed during the aggregation of Alzheimer's amyloid-β (Aβ40) peptide. We find that even conservative single mutations altering this interaction can abolish Aβ40 toxicity. Significantly, the mutants are not distinguishable either by the oligomers size or by the end-state fibrillar structure from the wild type Aβ40. We trace the change in their toxicity to a drastic lowering of membrane affinity. Therefore, nonlocal folding contacts play a key role in steering the oligomeric intermediates through specific conformations with very different properties and toxicity levels. Our results suggest that engineering the folding energy landscape may provide an alternative route to Alzheimer therapeutics.
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Affiliation(s)
- Anand K. Das
- Department
of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Anoop Rawat
- Department
of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Debanjan Bhowmik
- Department
of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Rucha Pandit
- Department
of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Daniel Huster
- Institute
of Medical Physics and Biophysics, University of Leipzig, Härtelstr.
16-18, D-04107 Leipzig, Germany
| | - Sudipta Maiti
- Department
of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
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