1
|
Mirloup A, Berthomé Y, Riché S, Wagner P, Hanser F, Laurent A, Iturrioz X, Llorens-Cortes C, Karpenko J, Bonnet D. Alared: Solvatochromic and Fluorogenic Red Amino Acid for Ratiometric Live-Cell Imaging of Bioactive Peptides. Chemistry 2024; 30:e202401296. [PMID: 38641990 DOI: 10.1002/chem.202401296] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2024] [Accepted: 04/17/2024] [Indexed: 04/21/2024]
Abstract
To fill the need for environmentally sensitive fluorescent unnatural amino acids able to operate in the red region of the spectrum, we have designed and synthesized Alared, a red solvatochromic and fluorogenic amino acid derived from the Nile Red chromophore. The new unnatural amino acid can be easily integrated into bioactive peptides using classical solid-phase peptide synthesis. The fluorescence quantum yield and the emission maximum of Alared-labeled peptides vary in a broad range depending on the peptide's environment, making Alared a powerful reporter of biomolecular interactions. Due to its red-shifted absorption and emission spectra, Alared-labeled peptides could be followed in living cells with minimal interference from cellular autofluorescence. Using ratiometric fluorescence microscopy, we were able to track the fate of the Alared-labeled peptide agonists of the apelin G protein-coupled receptor upon receptor activation and internalization. Due to its color-shifting environmentally sensitive emission, Alared allowed for distinguishing the fractions of peptides that are specifically bound to the receptor or unspecifically bound to different cellular membranes.
Collapse
Affiliation(s)
- Antoine Mirloup
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Yann Berthomé
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Stéphanie Riché
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Patrick Wagner
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Fabien Hanser
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Arthur Laurent
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Xavier Iturrioz
- Université Paris Saclay, CEA, INRAE, Medicines and Technologies for Health Department, SIMoS, F-91190, Gif-sur-Yvette, France
| | - Catherine Llorens-Cortes
- Université Paris Saclay, CEA, INRAE, Medicines and Technologies for Health Department, SIMoS, F-91190, Gif-sur-Yvette, France
- Laboratory of Central Neuropeptides in the Regulation of Body Fluid Homeostasis and Cardiovascular Functions, College de France, INSERM U1050/CNRS UMR7241, 11 Place Marcelin Berthelot, 75005, Paris, France
| | - Julie Karpenko
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Dominique Bonnet
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| |
Collapse
|
2
|
Cristofori-Armstrong B, Budusan E, Smith JJ, Reynaud S, Voll K, Chassagnon IR, Durek T, Rash LD. Revealing molecular determinants governing mambalgin-3 pharmacology at acid-sensing ion channel 1 variants. Cell Mol Life Sci 2024; 81:266. [PMID: 38880807 DOI: 10.1007/s00018-024-05276-2] [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] [Received: 01/22/2024] [Revised: 04/19/2024] [Accepted: 05/12/2024] [Indexed: 06/18/2024]
Abstract
Acid-sensing ion channels (ASICs) are trimeric proton-gated cation channels that play a role in neurotransmission and pain sensation. The snake venom-derived peptides, mambalgins, exhibit potent analgesic effects in rodents by inhibiting central ASIC1a and peripheral ASIC1b. Despite their distinct species- and subtype-dependent pharmacology, previous structure-function studies have focussed on the mambalgin interaction with ASIC1a. Currently, the specific channel residues responsible for this pharmacological profile, and the mambalgin pharmacophore at ASIC1b remain unknown. Here we identify non-conserved residues at the ASIC1 subunit interface that drive differences in the mambalgin pharmacology from rat ASIC1a to ASIC1b, some of which likely do not make peptide binding interactions. Additionally, an amino acid variation below the core binding site explains potency differences between rat and human ASIC1. Two regions within the palm domain, which contribute to subtype-dependent effects for mambalgins, play key roles in ASIC gating, consistent with subtype-specific differences in the peptides mechanism. Lastly, there is a shared primary mambalgin pharmacophore for ASIC1a and ASIC1b activity, with certain peripheral peptide residues showing variant-specific significance for potency. Through our broad mutagenesis studies across various species and subtype variants, we gain a more comprehensive understanding of the pharmacophore and the intricate molecular interactions that underlie ligand specificity. These insights pave the way for the development of more potent and targeted peptide analogues required to advance our understating of human ASIC1 function and its role in disease.
Collapse
Affiliation(s)
- Ben Cristofori-Armstrong
- Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Elena Budusan
- School of Biomedical Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia
- Department of Biomedical Sciences, University of Lausanne, Lausanne, Switzerland
| | - Jennifer J Smith
- Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD, 4072, Australia
- Genentech, 1 DNA Way, South San Francisco, CA, 94080, United States
| | - Steve Reynaud
- Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD, 4072, Australia
- In Extenso Innovation Growth, Lyon, France
| | - Kerstin Voll
- Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD, 4072, Australia
- Boehringer Ingelheim Pharma GmbH & Co. KG, Birkendorfer Str. 65, 88397, Biberach an der Riß, Germany
| | - Irène R Chassagnon
- Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD, 4072, Australia
- Servatus Ltd. Coolum Beach, Coolum Beach, QLD, Australia
| | - Thomas Durek
- Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Lachlan D Rash
- School of Biomedical Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia.
| |
Collapse
|
3
|
Yi HB, Lee S, Seo K, Kim H, Kim M, Lee HS. Cellular and Biophysical Applications of Genetic Code Expansion. Chem Rev 2024; 124:7465-7530. [PMID: 38753805 DOI: 10.1021/acs.chemrev.4c00112] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/18/2024]
Abstract
Despite their diverse functions, proteins are inherently constructed from a limited set of building blocks. These compositional constraints pose significant challenges to protein research and its practical applications. Strategically manipulating the cellular protein synthesis system to incorporate novel building blocks has emerged as a critical approach for overcoming these constraints in protein research and application. In the past two decades, the field of genetic code expansion (GCE) has achieved significant advancements, enabling the integration of numerous novel functionalities into proteins across a variety of organisms. This technological evolution has paved the way for the extensive application of genetic code expansion across multiple domains, including protein imaging, the introduction of probes for protein research, analysis of protein-protein interactions, spatiotemporal control of protein function, exploration of proteome changes induced by external stimuli, and the synthesis of proteins endowed with novel functions. In this comprehensive Review, we aim to provide an overview of cellular and biophysical applications that have employed GCE technology over the past two decades.
Collapse
Affiliation(s)
- Han Bin Yi
- Department of Chemistry, Sogang University, 35 Baekbeom-ro, Mapo-gu, Seoul 04107, Republic of Korea
| | - Seungeun Lee
- Department of Chemistry, Sogang University, 35 Baekbeom-ro, Mapo-gu, Seoul 04107, Republic of Korea
| | - Kyungdeok Seo
- Department of Chemistry, Sogang University, 35 Baekbeom-ro, Mapo-gu, Seoul 04107, Republic of Korea
| | - Hyeongjo Kim
- Department of Chemistry, Sogang University, 35 Baekbeom-ro, Mapo-gu, Seoul 04107, Republic of Korea
| | - Minah Kim
- Department of Chemistry, Sogang University, 35 Baekbeom-ro, Mapo-gu, Seoul 04107, Republic of Korea
| | - Hyun Soo Lee
- Department of Chemistry, Sogang University, 35 Baekbeom-ro, Mapo-gu, Seoul 04107, Republic of Korea
| |
Collapse
|
4
|
Feng RR, Wang M, Zhang W, Gai F. Unnatural Amino Acids for Biological Spectroscopy and Microscopy. Chem Rev 2024; 124:6501-6542. [PMID: 38722769 DOI: 10.1021/acs.chemrev.3c00944] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/23/2024]
Abstract
Due to advances in methods for site-specific incorporation of unnatural amino acids (UAAs) into proteins, a large number of UAAs with tailored chemical and/or physical properties have been developed and used in a wide array of biological applications. In particular, UAAs with specific spectroscopic characteristics can be used as external reporters to produce additional signals, hence increasing the information content obtainable in protein spectroscopic and/or imaging measurements. In this Review, we summarize the progress in the past two decades in the development of such UAAs and their applications in biological spectroscopy and microscopy, with a focus on UAAs that can be used as site-specific vibrational, fluorescence, electron paramagnetic resonance (EPR), or nuclear magnetic resonance (NMR) probes. Wherever applicable, we also discuss future directions.
Collapse
Affiliation(s)
- Ran-Ran Feng
- Beijing National Laboratory for Molecular Sciences, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
| | - Manxi Wang
- Beijing National Laboratory for Molecular Sciences, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
| | - Wenkai Zhang
- Department of Physics and Applied Optics Beijing Area Major Laboratory, Beijing Normal University, Beijing 100875, China
| | - Feng Gai
- Beijing National Laboratory for Molecular Sciences, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
| |
Collapse
|
5
|
Engineering of enzymes using non-natural amino acids. Biosci Rep 2022; 42:231590. [PMID: 35856922 PMCID: PMC9366748 DOI: 10.1042/bsr20220168] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2022] [Revised: 07/05/2022] [Accepted: 07/20/2022] [Indexed: 11/17/2022] Open
Abstract
In enzyme engineering, the main targets for enhancing properties are enzyme activity, stereoselective specificity, stability, substrate range, and the development of unique functions. With the advent of genetic code extension technology, non-natural amino acids (nnAAs) are able to be incorporated into proteins in a site-specific or residue-specific manner, which breaks the limit of 20 natural amino acids for protein engineering. Benefitting from this approach, numerous enzymes have been engineered with nnAAs for improved properties or extended functionality. In this review, we focus on applications and strategies for using nnAAs in enzyme engineering. Notably, approaches to computational modelling of enzymes with nnAAs are also addressed. Finally, we discuss the bottlenecks that currently need to be addressed in order to realise the broader prospects of this genetic code extension technique.
Collapse
|
6
|
Abstract
Fluorescence spectroscopy and microscopy are non-destructive methods that provide real-time measurements of ion channel structural dynamics. As such, they constitute a direct path linking the high-resolution structural models from X-ray crystallography and cryo-electron microscopy with the high-resolution functional data from ionic current measurements. The utility of fluorescence as a reporter of channel structure is limited by the palette of available fluorophores. Thiol-reactive fluorophores are small and bright, but are restricted in terms of the positions on a protein that can be labeled and present significant issues with background incorporation. Genetically encoded fluorescent protein tags are specific to a protein of interest, but are very large and usually only used to label the free N- and C-termini of proteins. L-3-(6-acetylnaphthalen-2-ylamino)-2-aminopropionic acid (ANAP) is a fluorescent amino acid that can be specifically incorporated into virtually any site on a protein of interest using amber stop-codon suppression. Due to its environmental sensitivity and potential as a donor in fluorescence resonance energy transfer experiments, it has been adopted by numerous investigators to study voltage, ligand, and temperature-dependent activation of a host of ion channels. Simultaneous measurements of ionic currents and ANAP fluorescence yield exceptional mechanistic insights into channel function. In this chapter, I will summarize the current literature regarding ANAP and ion channels and discuss the practical aspects of using ANAP, including potential pitfalls and confounds.
Collapse
|
7
|
Osmakov DI, Khasanov TA, Andreev YA, Lyukmanova EN, Kozlov SA. Animal, Herb, and Microbial Toxins for Structural and Pharmacological Study of Acid-Sensing Ion Channels. Front Pharmacol 2020; 11:991. [PMID: 32733241 PMCID: PMC7360831 DOI: 10.3389/fphar.2020.00991] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2020] [Accepted: 06/19/2020] [Indexed: 12/22/2022] Open
Abstract
Acid-sensing ion channels (ASICs) are of the most sensitive molecular sensors of extracellular pH change in mammals. Six isoforms of these channels are widely represented in membranes of neuronal and non-neuronal cells, where these molecules are involved in different important regulatory functions, such as synaptic plasticity, learning, memory, and nociception, as well as in various pathological states. Structural and functional studies of both wild-type and mutant ASICs are essential for human care and medicine for the efficient treatment of socially significant diseases and ensure a comfortable standard of life. Ligands of ASICs serve as indispensable tools for these studies. Such bioactive compounds can be synthesized artificially. However, to date, the search for such molecules has been most effective amongst natural sources, such as animal venoms or plants and microbial extracts. In this review, we provide a detailed and comprehensive structural and functional description of natural compounds acting on ASICs, as well as the latest information on structural aspects of their interaction with the channels. Many of the examples provided in the review demonstrate the undoubted fundamental and practical successes of using natural toxins. Without toxins, it would not be possible to obtain data on the mechanisms of ASICs' functioning, provide detailed study of their pharmacological properties, or assess the contribution of the channels to development of different pathologies. The selectivity to different isoforms and variety in the channel modulation mode allow for the appraisal of prospective candidates for the development of new drugs.
Collapse
Affiliation(s)
- Dmitry I. Osmakov
- Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Science, Moscow, Russia
- Institute of Molecular Medicine, Sechenov First Moscow State Medical University, Moscow, Russia
| | - Timur A. Khasanov
- Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Science, Moscow, Russia
| | - Yaroslav A. Andreev
- Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Science, Moscow, Russia
- Institute of Molecular Medicine, Sechenov First Moscow State Medical University, Moscow, Russia
| | - Ekaterina N. Lyukmanova
- Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Science, Moscow, Russia
| | - Sergey A. Kozlov
- Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Science, Moscow, Russia
| |
Collapse
|
8
|
Yang X, Wang Y, Wu C, Ling EA. Animal Venom Peptides as a Treasure Trove for New Therapeutics Against Neurodegenerative Disorders. Curr Med Chem 2019; 26:4749-4774. [PMID: 30378475 DOI: 10.2174/0929867325666181031122438] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2018] [Revised: 10/08/2018] [Accepted: 10/24/2018] [Indexed: 12/12/2022]
Abstract
BACKGROUND Neurodegenerative diseases, such as Alzheimer's disease, Parkinson's disease, and cerebral ischemic stroke, impose enormous socio-economic burdens on both patients and health-care systems. However, drugs targeting these diseases remain unsatisfactory, and hence there is an urgent need for the development of novel and potent drug candidates. METHODS Animal toxins exhibit rich diversity in both proteins and peptides, which play vital roles in biomedical drug development. As a molecular tool, animal toxin peptides have not only helped clarify many critical physiological processes but also led to the discovery of novel drugs and clinical therapeutics. RESULTS Recently, toxin peptides identified from venomous animals, e.g. exenatide, ziconotide, Hi1a, and PcTx1 from spider venom, have been shown to block specific ion channels, alleviate inflammation, decrease protein aggregates, regulate glutamate and neurotransmitter levels, and increase neuroprotective factors. CONCLUSION Thus, components of venom hold considerable capacity as drug candidates for the alleviation or reduction of neurodegeneration. This review highlights studies evaluating different animal toxins, especially peptides, as promising therapeutic tools for the treatment of different neurodegenerative diseases and disorders.
Collapse
Affiliation(s)
- Xinwang Yang
- Department of Anatomy and Histology & Embryology, Faculty of Basic Medical Science, Kunming Medical University, Kunming 650500, Yunnan, China
| | - Ying Wang
- Key Laboratory of Chemistry in Ethnic Medicine Resource, State Ethnic Affairs Commission & Ministry of Education, School of Ethnomedicine and Ethnopharmacy, Yunnan Minzu University, Kunming 650500, Yunnan, China
| | - Chunyun Wu
- Department of Anatomy and Histology & Embryology, Faculty of Basic Medical Science, Kunming Medical University, Kunming 650500, Yunnan, China
| | - Eng-Ang Ling
- Department of Anatomy, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117597, Singapore
| |
Collapse
|
9
|
Shandell MA, Quejada JR, Yazawa M, Cornish VW, Kass RS. Detection of Na v1.5 Conformational Change in Mammalian Cells Using the Noncanonical Amino Acid ANAP. Biophys J 2019; 117:1352-1363. [PMID: 31521331 PMCID: PMC6818161 DOI: 10.1016/j.bpj.2019.08.028] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2019] [Revised: 07/29/2019] [Accepted: 08/19/2019] [Indexed: 12/27/2022] Open
Abstract
Nav1.5 inactivation is necessary for healthy conduction of the cardiac action potential. Genetic mutations of Nav1.5 perturb inactivation and cause potentially fatal arrhythmias associated with long QT syndrome type 3. The exact structural dynamics of the inactivation complex is unknown. To sense inactivation gate conformational change in live mammalian cells, we incorporated the solvatochromic fluorescent noncanonical amino acid 3-((6-acetylnaphthalen-2-yl)amino)-2-aminopropanoic acid (ANAP) into single sites in the Nav1.5 inactivation gate. ANAP was incorporated in full-length and C-terminally truncated Nav1.5 channels using mammalian cell synthetase-tRNA technology. ANAP-incorporated channels were expressed in mammalian cells, and they exhibited pathophysiological function. A spectral imaging potassium depolarization assay was designed to detect ANAP emission shifts associated with Nav1.5 conformational change. Site-specific intracellular ANAP incorporation affords live-cell imaging and detection of Nav1.5 inactivation gate conformational change in mammalian cells.
Collapse
Affiliation(s)
- Mia A Shandell
- Department of Pharmacology, College of Physicians and Surgeons, Columbia University, New York, New York.
| | - Jose R Quejada
- Department of Pharmacology, College of Physicians and Surgeons, Columbia University, New York, New York; Department of Rehabilitation and Regenerative Medicine, Columbia Stem Cell Initiative, Columbia University, New York, New York
| | - Masayuki Yazawa
- Department of Pharmacology, College of Physicians and Surgeons, Columbia University, New York, New York; Department of Rehabilitation and Regenerative Medicine, Columbia Stem Cell Initiative, Columbia University, New York, New York
| | - Virginia W Cornish
- Department of Pharmacology, College of Physicians and Surgeons, Columbia University, New York, New York; Department of Chemistry, Columbia University, New York, New York.
| | - Robert S Kass
- Department of Pharmacology, College of Physicians and Surgeons, Columbia University, New York, New York.
| |
Collapse
|
10
|
Bell JD, Morgan TEF, Buijs N, Harkiss AH, Wellaway CR, Sutherland A. Synthesis and Photophysical Properties of Benzotriazole-Derived Unnatural α-Amino Acids. J Org Chem 2019; 84:10436-10448. [DOI: 10.1021/acs.joc.9b01685] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Jonathan D. Bell
- WestCHEM, School of Chemistry, The Joseph Black Building, University of Glasgow, Glasgow G12 8QQ, U.K
| | - Timaeus E. F. Morgan
- WestCHEM, School of Chemistry, The Joseph Black Building, University of Glasgow, Glasgow G12 8QQ, U.K
| | - Ned Buijs
- WestCHEM, School of Chemistry, The Joseph Black Building, University of Glasgow, Glasgow G12 8QQ, U.K
| | - Alexander H. Harkiss
- WestCHEM, School of Chemistry, The Joseph Black Building, University of Glasgow, Glasgow G12 8QQ, U.K
| | - Christopher R. Wellaway
- Medicinal Chemistry, GlaxoSmithKline Medicines Research Centre, Gunnels Wood Road, Stevenage SG1 2NY, U.K
| | - Andrew Sutherland
- WestCHEM, School of Chemistry, The Joseph Black Building, University of Glasgow, Glasgow G12 8QQ, U.K
| |
Collapse
|
11
|
Yang F, Xiao X, Lee BH, Vu S, Yang W, Yarov-Yarovoy V, Zheng J. The conformational wave in capsaicin activation of transient receptor potential vanilloid 1 ion channel. Nat Commun 2018; 9:2879. [PMID: 30038260 PMCID: PMC6056546 DOI: 10.1038/s41467-018-05339-6] [Citation(s) in RCA: 50] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2017] [Accepted: 06/19/2018] [Indexed: 01/17/2023] Open
Abstract
The capsaicin receptor TRPV1 has been intensively studied by cryo-electron microscopy and functional tests. However, though the apo and capsaicin-bound structural models are available, the dynamic process of capsaicin activation remains intangible, largely due to the lack of a capsaicin-induced open structural model and the low occupancy of the transition states. Here we report that reducing temperature toward the freezing point substantially increased channel closure events even in the presence of saturating capsaicin. We further used a combination of fluorescent unnatural amino acid (fUAA) incorporation, computational modeling, and rate-equilibrium linear free-energy relationships analysis (Φ-analysis) to derive the fully open capsaicin-bound state model, and reveal how the channel transits from the apo to the open state. We observed that capsaicin initiates a conformational wave that propagates through the S4–S5 linker towards the S6 bundle and finally reaching the selectivity filter. Our study provides a temporal mechanism for capsaicin activation of TRPV1. The capsaicin receptor TRPV1 has been structurally characterized, but the capsaicin activation dynamics remain elusive. Here authors use fluorescent unnatural amino acid incorporation, computational modeling and Φ-analysis to derive the capsaicin-bound open state model and reveal the capsaicin induced conformational changes.
Collapse
Affiliation(s)
- Fan Yang
- Department of Biophysics and Kidney Disease Center, First Affiliated Hospital, Institute of Neuroscience, National Health Commission and Chinese Academy of Medical Sciences Key Laboratory of Medical Neurobiology, Zhejiang University School of Medicine, Hangzhou, 310058, Zhejiang Province, China. .,Department of Physiology and Membrane Biology, University of California, Davis, CA, 95616, USA.
| | - Xian Xiao
- Department of Physiology and Membrane Biology, University of California, Davis, CA, 95616, USA.,Institute for Basic Medical Sciences, Westlake Institute for Advanced Study, Westlake University, Shilongshan Road No. 18, Xihu District, Hangzhou, 310024, Zhejiang Province, China
| | - Bo Hyun Lee
- Department of Physiology and Membrane Biology, University of California, Davis, CA, 95616, USA.,University of Washington, Department of Physiology and Biophysics, Seattle, WA, 98195, USA
| | - Simon Vu
- Department of Physiology and Membrane Biology, University of California, Davis, CA, 95616, USA
| | - Wei Yang
- Department of Biophysics and Kidney Disease Center, First Affiliated Hospital, Institute of Neuroscience, National Health Commission and Chinese Academy of Medical Sciences Key Laboratory of Medical Neurobiology, Zhejiang University School of Medicine, Hangzhou, 310058, Zhejiang Province, China
| | - Vladimir Yarov-Yarovoy
- Department of Physiology and Membrane Biology, University of California, Davis, CA, 95616, USA
| | - Jie Zheng
- Department of Physiology and Membrane Biology, University of California, Davis, CA, 95616, USA.
| |
Collapse
|
12
|
Gordon SE, Munari M, Zagotta WN. Visualizing conformational dynamics of proteins in solution and at the cell membrane. eLife 2018; 7:37248. [PMID: 29923827 PMCID: PMC6056233 DOI: 10.7554/elife.37248] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2018] [Accepted: 06/05/2018] [Indexed: 01/03/2023] Open
Abstract
Conformational dynamics underlie enzyme function, yet are generally inaccessible via traditional structural approaches. FRET has the potential to measure conformational dynamics in vitro and in intact cells, but technical barriers have thus far limited its accuracy, particularly in membrane proteins. Here, we combine amber codon suppression to introduce a donor fluorescent noncanonical amino acid with a new, biocompatible approach for labeling proteins with acceptor transition metals in a method called ACCuRET (Anap Cyclen-Cu2+ resonance energy transfer). We show that ACCuRET measures absolute distances and distance changes with high precision and accuracy using maltose binding protein as a benchmark. Using cell unroofing, we show that ACCuRET can accurately measure rearrangements of proteins in native membranes. Finally, we implement a computational method for correcting the measured distances for the distance distributions observed in proteins. ACCuRET thus provides a flexible, powerful method for measuring conformational dynamics in both soluble proteins and membrane proteins.
Collapse
Affiliation(s)
- Sharona E Gordon
- Department of Physiology and Biophysics, University of Washington, Seattle, United States
| | - Mika Munari
- Department of Physiology and Biophysics, University of Washington, Seattle, United States
| | - William N Zagotta
- Department of Physiology and Biophysics, University of Washington, Seattle, United States
| |
Collapse
|
13
|
Klippenstein V, Mony L, Paoletti P. Probing Ion Channel Structure and Function Using Light-Sensitive Amino Acids. Trends Biochem Sci 2018; 43:436-451. [PMID: 29650383 DOI: 10.1016/j.tibs.2018.02.012] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2018] [Revised: 02/25/2018] [Accepted: 02/27/2018] [Indexed: 12/13/2022]
Abstract
Approaches to remotely control and monitor ion channel operation with light are expanding rapidly in the biophysics and neuroscience fields. A recent development directly introduces light sensitivity into proteins by utilizing photosensitive unnatural amino acids (UAAs) incorporated using the genetic code expansion technique. The introduction of UAAs results in unique molecular level control and, when combined with the maximal spatiotemporal resolution and poor invasiveness of light, enables direct manipulation and interrogation of ion channel functionality. Here, we review the diverse applications of light-sensitive UAAs in two superfamilies of ion channels (voltage- and ligand-gated ion channels; VGICs and LGICs) and summarize existing UAA tools, their mode of action, potential, caveats, and technical considerations to their use in illuminating ion channel structure and function.
Collapse
Affiliation(s)
- Viktoria Klippenstein
- Institut de Biologie de I'ENS (IBENS), CNRS UMR8197, INSERM U1024, Ecole Normale Supérieure, Université PSL, 46 rue d'Ulm, 75005 Paris, France; These authors contributed equally to this work
| | - Laetitia Mony
- Institut de Biologie de I'ENS (IBENS), CNRS UMR8197, INSERM U1024, Ecole Normale Supérieure, Université PSL, 46 rue d'Ulm, 75005 Paris, France; These authors contributed equally to this work
| | - Pierre Paoletti
- Institut de Biologie de I'ENS (IBENS), CNRS UMR8197, INSERM U1024, Ecole Normale Supérieure, Université PSL, 46 rue d'Ulm, 75005 Paris, France.
| |
Collapse
|
14
|
Wulf M, Pless SA. High-Sensitivity Fluorometry to Resolve Ion Channel Conformational Dynamics. Cell Rep 2018; 22:1615-1626. [DOI: 10.1016/j.celrep.2018.01.029] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2017] [Revised: 12/01/2017] [Accepted: 01/10/2018] [Indexed: 10/18/2022] Open
|
15
|
Chen X, Xu H, Ma S, Tong H, Lou K, Wang W. A simple two-photon turn-on fluorescent probe for the selective detection of cysteine based on a dual PeT/ICT mechanism. RSC Adv 2018; 8:13388-13392. [PMID: 35542560 PMCID: PMC9079754 DOI: 10.1039/c8ra02138d] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2018] [Accepted: 03/29/2018] [Indexed: 01/15/2023] Open
Abstract
Herein, a simple two-photon turn-on fluorescent probe, N-(6-acyl-2-naphthayl)-maleimide (1), based on a dual PeT/ICT quenching mechanism is reported for the highly sensitive and selective detection of cysteine (Cys) over other biothiols. The probe was applied in the two-photon imaging of Cys in cultured HeLa cells, excited by a near-infrared laser at 690 nm. N-(6-acyl-2-naphthayl)-maleimide (1) is a simple two-photon fluorescent probe with selectivity for cysteine, based on a thiol-Michael-addition-transcyclization cascade and dual PeT/ICT quenching mechanism.![]()
Collapse
Affiliation(s)
- Xiani Chen
- Shanghai Key Laboratory of New Drug Design
- Shanghai Key Laboratory of Chemical Biology
- School of Pharmacy
- State Key Laboratory of Bioengineering Reactor
- East China University of Science and Technology
| | - Hang Xu
- Shanghai Key Laboratory of New Drug Design
- Shanghai Key Laboratory of Chemical Biology
- School of Pharmacy
- State Key Laboratory of Bioengineering Reactor
- East China University of Science and Technology
| | - Shengnan Ma
- Shanghai Key Laboratory of New Drug Design
- Shanghai Key Laboratory of Chemical Biology
- School of Pharmacy
- State Key Laboratory of Bioengineering Reactor
- East China University of Science and Technology
| | - Hongjuan Tong
- Shanghai Key Laboratory of New Drug Design
- Shanghai Key Laboratory of Chemical Biology
- School of Pharmacy
- State Key Laboratory of Bioengineering Reactor
- East China University of Science and Technology
| | - Kaiyan Lou
- Shanghai Key Laboratory of New Drug Design
- Shanghai Key Laboratory of Chemical Biology
- School of Pharmacy
- State Key Laboratory of Bioengineering Reactor
- East China University of Science and Technology
| | - Wei Wang
- Shanghai Key Laboratory of New Drug Design
- Shanghai Key Laboratory of Chemical Biology
- School of Pharmacy
- State Key Laboratory of Bioengineering Reactor
- East China University of Science and Technology
| |
Collapse
|
16
|
Lan H, Wu K, Zheng Y, Pan M, Huang YC, Gao S, Zheng QY, Zheng JS, Li YM, Xiao B, Liu L. Total synthesis of mambalgin-1/2/3 by two-segment hydrazide-based native chemical ligation. J Pept Sci 2016; 22:320-6. [PMID: 26991634 DOI: 10.1002/psc.2868] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2015] [Revised: 02/03/2016] [Accepted: 02/04/2016] [Indexed: 02/03/2023]
Abstract
Mambalgins are a class of 57-residue polypeptide toxins isolated from the venom of the African mamba. They exhibit potent analgesic effects by inhibiting the acid-sensing ion channels. Classified as members of the family of three-finger toxins, mambalgins contain four pairs of disulfide bridges that help to stabilize the three-finger scaffold. Here, we report the chemical synthesis of functional mambalgin-1/2/3 by using one-step two-segment hydrazide-based native chemical ligation. The two-segment ligation approach reported here may enable efficient production of mambalgin toxins. These synthetic mambalgins are useful compounds for development of diagnostic or therapeutic reagents. Copyright © 2016 European Peptide Society and John Wiley & Sons, Ltd.
Collapse
Affiliation(s)
- Huan Lan
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology (Ministry of Education), Department of Chemistry, Tsinghua University, Beijing, 100084, China.,Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing, 100084, China
| | - Kun Wu
- IDG/McGovern Institute for Brain Research, School of Pharmaceutical Sciences, Tsinghua University, Beijing, 100084, China.,School of Pharmaceutical Sciences, Tsinghua University, Beijing, 100084, China
| | - Yong Zheng
- High Magnetic Field Laboratory, Chinese Academy of Sciences, Hefei, 230031, China
| | - Man Pan
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology (Ministry of Education), Department of Chemistry, Tsinghua University, Beijing, 100084, China
| | - Yi-Chao Huang
- Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing, 100084, China
| | - Shuai Gao
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology (Ministry of Education), Department of Chemistry, Tsinghua University, Beijing, 100084, China.,Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing, 100084, China
| | - Qing-Yun Zheng
- Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing, 100084, China
| | - Ji-Shen Zheng
- High Magnetic Field Laboratory, Chinese Academy of Sciences, Hefei, 230031, China
| | - Yi-Ming Li
- School of Medical Engineering, Hefei University of Technology, Hefei, 230009, China.,State Key Laboratory of Medicinal Chemical Biology, Nankai University, Nankai, China
| | - Bailong Xiao
- IDG/McGovern Institute for Brain Research, School of Pharmaceutical Sciences, Tsinghua University, Beijing, 100084, China.,School of Pharmaceutical Sciences, Tsinghua University, Beijing, 100084, China
| | - Lei Liu
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology (Ministry of Education), Department of Chemistry, Tsinghua University, Beijing, 100084, China.,Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing, 100084, China
| |
Collapse
|
17
|
Aman TK, Gordon SE, Zagotta WN. Regulation of CNGA1 Channel Gating by Interactions with the Membrane. J Biol Chem 2016; 291:9939-47. [PMID: 26969165 DOI: 10.1074/jbc.m116.723932] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2016] [Indexed: 11/06/2022] Open
Abstract
Cyclic nucleotide-gated (CNG) channels are expressed in rod photoreceptors and open in response to direct binding of cyclic nucleotides. We have previously shown that potentiation of CNGA1 channels by transition metals requires a histidine in the A' helix following the S6 transmembrane segment. Here, we used transition metal ion FRET and patch clamp fluorometry with a fluorescent, noncanonical amino acid (3-(6-acetylnaphthalen-2-ylamino)-2-aminopropanoic acid (Anap)) to show that the potentiating transition metal Co(2+) binds in or near the A' helix. Adding high-affinity metal-binding sites to the membrane (stearoyl-nitrilotriacetic acid (C18-NTA)) increased potentiation for low Co(2+) concentrations, indicating that the membrane can coordinate metal ions with the A' helix. These results suggest that restraining the A' helix to the plasma membrane potentiates CNGA1 channel opening. Similar interactions between the A' helix and the plasma membrane may underlie regulation of structurally related hyperpolarization-activated cyclic nucleotide-gated (HCN) and voltage-gated potassium subfamily H (KCNH) channels by plasma membrane components.
Collapse
Affiliation(s)
- Teresa K Aman
- From the Department of Physiology and Biophysics, University of Washington, Seattle, Washington 98195
| | - Sharona E Gordon
- From the Department of Physiology and Biophysics, University of Washington, Seattle, Washington 98195
| | - William N Zagotta
- From the Department of Physiology and Biophysics, University of Washington, Seattle, Washington 98195
| |
Collapse
|
18
|
Harkiss AH, Sutherland A. Recent advances in the synthesis and application of fluorescent α-amino acids. Org Biomol Chem 2016; 14:8911-8921. [DOI: 10.1039/c6ob01715k] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
The design and synthesis of new fluorescent α-amino acids as well as their application in imaging of biological systems has been reviewed.
Collapse
Affiliation(s)
- Alexander H. Harkiss
- WestCHEM
- School of Chemistry
- The Joseph Black Building
- University of Glasgow
- Glasgow G12 8QQ
| | - Andrew Sutherland
- WestCHEM
- School of Chemistry
- The Joseph Black Building
- University of Glasgow
- Glasgow G12 8QQ
| |
Collapse
|