1
|
Cioffi CL, Raja A, Muthuraman P, Jayaraman A, Jayakumar S, Varadi A, Racz B, Petrukhin K. Identification of Transthyretin Tetramer Kinetic Stabilizers That Are Capable of Inhibiting the Retinol-Dependent Retinol Binding Protein 4-Transthyretin Interaction: Potential Novel Therapeutics for Macular Degeneration, Transthyretin Amyloidosis, and Their Common Age-Related Comorbidities. J Med Chem 2021; 64:9010-9041. [PMID: 34138572 DOI: 10.1021/acs.jmedchem.1c00099] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Dissociation of transthyretin (TTR) tetramers may lead to misfolding and aggregation of proamyloidogenic monomers, which underlies TTR amyloidosis (ATTR) pathophysiology. ATTR is a progressive disease resulting from the deposition of toxic fibrils in tissues that predominantly presents clinically as amyloid cardiomyopathy and peripheral polyneuropathy. Ligands that bind to and kinetically stabilize TTR tetramers prohibit their dissociation and may prevent ATTR onset. Drawing from clinically investigated AG10, we designed a constrained congener (14) that exhibits excellent TTR tetramer binding potency, prevents TTR aggregation in a gel-based assay, and possesses desirable pharmacokinetics in mice. Additionally, 14 significantly lowers murine serum retinol binding protein 4 (RBP4) levels despite a lack of binding at that protein's all-trans-retinol site. We hypothesize that kinetic stabilization of TTR tetramers via 14 is allosterically hindering all-trans-retinol-dependent RBP4-TTR tertiary complex formation and that the compound could present ancillary therapeutic utility for indications treated with RBP4 antagonists, such as macular degeneration.
Collapse
Affiliation(s)
- Christopher L Cioffi
- Departments of Basic and Clinical Sciences and Pharmaceutical Sciences, Albany College of Pharmacy and Health Sciences, 106 New Scotland Avenue, Albany, New York 12208, United States
| | - Arun Raja
- Departments of Basic and Clinical Sciences and Pharmaceutical Sciences, Albany College of Pharmacy and Health Sciences, 106 New Scotland Avenue, Albany, New York 12208, United States
| | - Parthasarathy Muthuraman
- Departments of Basic and Clinical Sciences and Pharmaceutical Sciences, Albany College of Pharmacy and Health Sciences, 106 New Scotland Avenue, Albany, New York 12208, United States
| | - Aravindan Jayaraman
- Departments of Basic and Clinical Sciences and Pharmaceutical Sciences, Albany College of Pharmacy and Health Sciences, 106 New Scotland Avenue, Albany, New York 12208, United States
| | - Srinivasan Jayakumar
- Departments of Basic and Clinical Sciences and Pharmaceutical Sciences, Albany College of Pharmacy and Health Sciences, 106 New Scotland Avenue, Albany, New York 12208, United States
| | - Andras Varadi
- Department of Ophthalmology, Columbia University Medical Center, New York, New York 10032, United States
| | - Boglarka Racz
- Department of Ophthalmology, Columbia University Medical Center, New York, New York 10032, United States
| | - Konstantin Petrukhin
- Department of Ophthalmology, Columbia University Medical Center, New York, New York 10032, United States
| |
Collapse
|
2
|
Karthikeyan S, Zalte RR, Festa AA, Voskressensky LG. Understanding the Binding Mechanism of a Pyrazino[1,2‐a]indole Derivative with Calf Thymus DNA. ChemistrySelect 2019. [DOI: 10.1002/slct.201803838] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Subramani Karthikeyan
- Department of Organic ChemistryScience FacultyPeoples' Friendship University of Russia (RUDN University) Miklukho-Maklaya St.,6 Moscow Russia 117198
| | - Rajesh R. Zalte
- Department of Organic ChemistryScience FacultyPeoples' Friendship University of Russia (RUDN University) Miklukho-Maklaya St.,6 Moscow Russia 117198
| | - Alexey A. Festa
- Department of Organic ChemistryScience FacultyPeoples' Friendship University of Russia (RUDN University) Miklukho-Maklaya St.,6 Moscow Russia 117198
| | - Leonid G. Voskressensky
- Department of Organic ChemistryScience FacultyPeoples' Friendship University of Russia (RUDN University) Miklukho-Maklaya St.,6 Moscow Russia 117198
| |
Collapse
|
3
|
Karthikeyan S, Bharanidharan G, Ragavan S, Kandasamy S, Chinnathambi S, Udayakumar K, Mangaiyarkarasi R, Suganya R, Aruna P, Ganesan S. Exploring the Binding Interaction Mechanism of Taxol in β-Tubulin and Bovine Serum Albumin: A Biophysical Approach. Mol Pharm 2019; 16:669-681. [PMID: 30601011 DOI: 10.1021/acs.molpharmaceut.8b00948] [Citation(s) in RCA: 31] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
In this present study on understanding the taxol (PTX) binding interaction mechanism in both the β-tubulin and bovine serum albumin (BSA) molecule, various optical spectroscopy and computational techniques were used. The fluorescence steady-state emission spectroscopy result suggests that there is a static quenching mechanism of the PTX drug in both β-tubulin and BSA, and further time-resolved emission spectroscopy studies confirm that the quenching mechanism exists. The excitation-emission matrix (EEM), Fourier transform infrared, and resonance light scattering spectra (FT-IR) confirm that there are structural changes in both the BSA and β-tubulin molecule during the binding process of PTX. The molecular docking studies revealed the PTX binding information in BSA, β-tubulin, and modeled β-tubulin and the best binding pose to further subject the molecular dynamics simulation, and this study confirms the stability of PTX in the protein complex during the simulation. Density functional theory (DFT) calculations were performed between the free PTX drug and PTX drug (single point) in the protein molecule active site region to understand the internal stability.
Collapse
Affiliation(s)
- Subramani Karthikeyan
- Department of Medical Physics , Anna University , Chennai 600 025 , India.,Department of Organic Chemistry, Science Faculty, Peoples' Friendship , University of Russia (RUDN University) , Mikluho Maklaya St. 6 , Moscow 117198 , Russia
| | | | - Sriram Ragavan
- Centre of Advanced Study in Crystallography and Biophysics , University of Madras , Chennai 600 025 , India
| | | | - Shanmugavel Chinnathambi
- International Center for Young Scientists , National Institute for Materials Science (NIMS) , 1-2-1 Sengen , Tsukuba , Ibaraki 305-0047 , Japan
| | - Kanniyappan Udayakumar
- University of Montreal, Saint-Justine Hospital University Center , 3175 Cote Sainte-Catherine , Montreal , QC H3T1C5 , Canada
| | | | | | - Prakasarao Aruna
- Department of Medical Physics , Anna University , Chennai 600 025 , India
| | | |
Collapse
|
4
|
Karthikeyan S, Bharanidharan G, Ragavan S, Kandasamy S, Chinnathambi S, Udayakumar K, Mangaiyarkarasi R, Sundaramoorthy A, Aruna P, Ganesan S. Comparative Binding Analysis of N-Acetylneuraminic Acid in Bovine Serum Albumin and Human α-1 Acid Glycoprotein. J Chem Inf Model 2018; 59:326-338. [PMID: 30481010 DOI: 10.1021/acs.jcim.8b00558] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
The present study focuses on the determination of the biologically significant N-acetylneuraminic acid (NANA) drug binding interaction mechanism between bovine serum albumin (BSA) and human α-1 acid glycoprotein (HAG) using various optical spectroscopy and computational methods. The steady state fluorescence spectroscopy result suggests that the fluorescence intensity of BSA and HAG was quenched by NANA in a static mode of quenching. Further time-resolved emission spectroscopy measurements confirm that mode of quenching mechanism of NANA in the BSA and HAG system. The FT-IR, excitation-emission matrix and circular dichroism (CD) analysis confirms the presence of NANA in the HAG, BSA system, and fluorescence resonance energy transfer analysis shows that NANA transfers energy between the HAG and BSA system. The molecular docking result shows good binding affinity in both protein complexes, and further molecular dynamics simulations and charge distribution analysis were performed to gain more insight into the binding interaction mechanism of NANA in the HAG and BSA complex.
Collapse
Affiliation(s)
- Subramani Karthikeyan
- Department of Medical Physics , Anna University , Chennai - 600 025 , India.,Department of Organic Chemistry, Science Faculty , Peoples' Friendship University of Russia (RUDN University) , MikluhoMaklaya St., 6 , Moscow , Russia , 117198
| | | | - Sriram Ragavan
- Centre of Advanced Study in Crystallography and Biophysics , University of Madras , Chennai - 600 025 , India
| | | | - Shanmugavel Chinnathambi
- International Center for Young Scientists , National Institute for Materials Science (NIMS) , 1-2-1 Sengen , Tsukuba , Ibaraki 305-0047 , Japan
| | - Kanniyappan Udayakumar
- Postdoctoral Research Fellow, University of Montreal , Saint-Justine Hospital University Center , 3175 Cote Sainte-Catherine , Montreal , Quebec H3T1C5 , Canada
| | | | | | - Prakasarao Aruna
- Department of Medical Physics , Anna University , Chennai - 600 025 , India
| | | |
Collapse
|
5
|
Zou L, Zhu J, Dong Y, Han W, Guo Y, Zhou H. Models for the binding channel of wild type and mutant transthyretin with glabridin. RSC Adv 2016. [DOI: 10.1039/c6ra19814g] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Our results indicate that additional high-occupancy hydrogen bonds were observed at the binding interface between the two dimers in V30A TTR, while stabilisation hydrophobic interactions between residues in the mutant AB loop decreased.
Collapse
Affiliation(s)
- Liyun Zou
- School of Life Sciences
- Jilin University
- Changchun 130012
- China
| | - Jingxuan Zhu
- School of Life Sciences
- Jilin University
- Changchun 130012
- China
- Key Laboratory for Molecular Enzymology and Engineering of Ministry of Education
| | - Yang Dong
- School of Life Sciences
- Jilin University
- Changchun 130012
- China
| | - Weiwei Han
- School of Life Sciences
- Jilin University
- Changchun 130012
- China
- Key Laboratory for Molecular Enzymology and Engineering of Ministry of Education
| | - Yingjie Guo
- School of Life Sciences
- Jilin University
- Changchun 130012
- China
| | - Hui Zhou
- School of Life Sciences
- Jilin University
- Changchun 130012
- China
| |
Collapse
|
6
|
Cianci M, Folli C, Zonta F, Florio P, Berni R, Zanotti G. Structural evidence for asymmetric ligand binding to transthyretin. ACTA ACUST UNITED AC 2015; 71:1582-92. [DOI: 10.1107/s1399004715010585] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2014] [Accepted: 06/01/2015] [Indexed: 12/22/2022]
Abstract
Human transthyretin (TTR) represents a notable example of an amyloidogenic protein, and several compounds that are able to stabilize its native state have been proposed as effective drugs in the therapy of TTR amyloidosis. The two thyroxine (T4) binding sites present in the TTR tetramer display negative binding cooperativity. Here, structures of TTR in complex with three natural polyphenols (pterostilbene, quercetin and apigenin) have been determined, in which this asymmetry manifests itself as the presence of a main binding site with clear ligand occupancy and related electron density and a second minor site with a much lower ligand occupancy. The results of an analysis of the structural differences between the two binding sites are consistent with such a binding asymmetry. The different ability of TTR ligands to saturate the two T4 binding sites of the tetrameric protein can be ascribed to the different affinity of ligands for the weaker binding site. In comparison, the high-affinity ligand tafamidis, co-crystallized under the same experimental conditions, was able to fully saturate the two T4 binding sites. This asymmetry is characterized by the presence of small but significant differences in the conformation of the cavity of the two binding sites. Molecular-dynamics simulations suggest the presence of even larger differences in solution. Competition binding assays carried out in solution revealed the presence of a preferential binding site in TTR for the polyphenols pterostilbene and quercetin that was different from the preferential binding site for T4. The TTR binding asymmetry could possibly be exploited for the therapy of TTR amyloidosis by using a cocktail of two drugs, each of which exhibits preferential binding for a distinct binding site, thus favouring saturation of the tetrameric protein and consequently its stabilization.
Collapse
|
7
|
3D-QSAR and docking studies on 2-arylbenzoxazole and linker-Y transthyretin amyloidogenesis inhibitors. Sci China Chem 2013. [DOI: 10.1007/s11426-013-4894-9] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
|
8
|
Zhang B, Yuan T, Jiang H, Lei M. Molecular Dynamics Simulations on the Stability and Assembly Mechanisms of Quadruple and Double Helical Aromatic Amide Foldamers. J Phys Chem B 2009; 113:10934-41. [DOI: 10.1021/jp9033358] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Baohua Zhang
- Institute of Material Medical/Department of Chemistry, School of Science, Beijing University of Chemical Technology, Beijing 100029, People’s Republic of China, and Beijing National Laboratory for Molecular Sciences, CAS Key Laboratory of Photochemistry, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, People’s Republic of China
| | - Tianhu Yuan
- Institute of Material Medical/Department of Chemistry, School of Science, Beijing University of Chemical Technology, Beijing 100029, People’s Republic of China, and Beijing National Laboratory for Molecular Sciences, CAS Key Laboratory of Photochemistry, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, People’s Republic of China
| | - Hua Jiang
- Institute of Material Medical/Department of Chemistry, School of Science, Beijing University of Chemical Technology, Beijing 100029, People’s Republic of China, and Beijing National Laboratory for Molecular Sciences, CAS Key Laboratory of Photochemistry, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, People’s Republic of China
| | - Ming Lei
- Institute of Material Medical/Department of Chemistry, School of Science, Beijing University of Chemical Technology, Beijing 100029, People’s Republic of China, and Beijing National Laboratory for Molecular Sciences, CAS Key Laboratory of Photochemistry, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, People’s Republic of China
| |
Collapse
|
9
|
Wang G, Chen Y, Zhong A, Du H, Lei M. A DFT Study on Formation of Bisaryl Oxime Ether from Benzaldehyde and Phenoxyamine. CHEM LETT 2008. [DOI: 10.1246/cl.2008.656] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
|