1
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Zhu S, Wang T, Zheng Y, Shi Q, Guo Q, Zhu J, Mao Y. Spectroscopic and molecular docking study of three kinds of cinnamic acid interaction with pepsin. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2023; 303:123169. [PMID: 37517266 DOI: 10.1016/j.saa.2023.123169] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2023] [Revised: 06/20/2023] [Accepted: 07/17/2023] [Indexed: 08/01/2023]
Abstract
In this work, under simulated physiological conditions (pH = 2.2, glycine hydrochloric acid buffer solution), the interactions of cinnamic acid (CA), m-hydroxycinnamic acid (m-CA) and p-hydroxycinnamic acid (p-CA) with pepsin were studied by fluorescence spectroscopy, ultraviolet-visible absorption spectroscopy, circular dichroism (CD) spectroscopy, Fourier transform infrared spectroscopy (FTIR), molecular docking and molecular dynamic simulation (MD). The spectrogram results showed that these three kinds of CA had a strong ability to quench the intrinsic fluorescence of pepsin, and the quenching effects were obvious with the increase of concentration of these three kinds of molecules. The quenching mechanism of CA, m-CA and p-CA on the fluorescence of pepsin was static quenching. In addition, a stable complex was formed between three kinds of CA with pepsin. Thermodynamic data and docking information suggested that three kinds of CA combine with pepsin were mainly driven by electrostatic force and hydrogen bond. The binding constant and the number of binding sites were determined. The interaction of CA, m-CA and p-CA with pepsin was spontaneous, and accompanied by non-radiative energy transfer. The results from CD, FTIR, UV-Vis and synchronous fluorescence spectra measurements manifested that the secondary structure of pepsin was changed by the binding of three kinds of CA. The β-sheet of pepsin increased after the interaction with three kinds of CA. The assay results of pepsin activity showed that three kinds of CA led to a decrease in pepsin activity within the investigated concentrations. Molecular docking investigation revealed the formation of polar hydrogen bonds as well as hydrophobic interactions between three kinds of CA with pepsin, and the ligand within the binding pocket of pepsin. MD results implied the formation of a stable complex between three kinds of CA and pepsin. The research suggested that cinnamic acid and its derivatives could be a potential effect on the structure and properties of digestive enzyme.
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Affiliation(s)
- Sujuan Zhu
- College of Bioscience and Biotechnology, Yangzhou University, Yangzhou, Jiangsu 225009, PR China.
| | - Ting Wang
- College of Bioscience and Biotechnology, Yangzhou University, Yangzhou, Jiangsu 225009, PR China
| | - Ying Zheng
- College of Bioscience and Biotechnology, Yangzhou University, Yangzhou, Jiangsu 225009, PR China
| | - Qiang Shi
- College of Bioscience and Biotechnology, Yangzhou University, Yangzhou, Jiangsu 225009, PR China
| | - Qian Guo
- College of Bioscience and Biotechnology, Yangzhou University, Yangzhou, Jiangsu 225009, PR China
| | - Jing Zhu
- College of Bioscience and Biotechnology, Yangzhou University, Yangzhou, Jiangsu 225009, PR China
| | - Yiyang Mao
- Center for Disease Control and Prevention, Yangzhou, Jiangsu 225009, PR China.
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2
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Rahman N, Khalil N. Characterization of sulfasalazine-bovine serum albumin and human serum albumin interaction by spectroscopic and theoretical approach. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2023; 300:122865. [PMID: 37269654 DOI: 10.1016/j.saa.2023.122865] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2023] [Revised: 04/20/2023] [Accepted: 05/10/2023] [Indexed: 06/05/2023]
Abstract
The interaction of sulfasalazine (SZ) with the carrier proteins bovine serum albumin (BSA) and human serum albumin (HSA) was explored by fluorescence, absorption and circular dichroism (CD) spectroscopy along within silicotechniques. The spectral alteration observed in fluorescence, absorption and CD spectra upon the addition of SZ confirmed the complex formation of SZ with BSA and HSA. The inverse temperature dependence behaviour of theKsvvalues as well as the increase in the protein's absorption signals after the addition of SZ indicate that SZ triggered quenching of BSA/HSA fluorescence as the static quenching. The binding affinity (kb) of the order of 106 M-1 was reported towards the BSA-SZ and HSA-SZ association process. Interpretation of thermodynamic data (enthalpy change = -93.85 kJ mol-1and entropy change = -200.81 J mol-1K-1for BSA-SZ system; enthalpy change = -74.12 kJ mol-1and entropy change = -123.90 J mol-1K-1for HSA-SZ system) anticipated that hydrogen bond and van der Waals forces were the main intermolecular forces in the complex stabilization. Inclusion of SZ to BSA/HSA produced microenvironmental perturbations around Tyr and Trp residues. The UV, synchronous and 3D analysis confirmed the structural alteration of proteins after SZ binding, which was supported by CD results. The binding location of SZ in BSA/HSA was detected in Sudlow's site I (subdomain IIA) and the same was revealed by competitive site-marker displacement investigations. Density functional theory study was done to comprehend the feasibility of the analysis and to optimize the structure and energy gap that validated the experimental results. This study is expected to provide deep information about the pharmacology of SZ with its pharmacokinetic properties.
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Affiliation(s)
- Nafisur Rahman
- Department of Chemistry, Aligarh Muslim University, Aligarh 202002, India.
| | - Nabila Khalil
- Department of Chemistry, Aligarh Muslim University, Aligarh 202002, India
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3
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Ashraf GM, Gupta DD, Alam MZ, Baeesa SS, Alghamdi BS, Anwar F, Alqurashi TMA, Al Abdulmonem W, Alyousef MA, Alhumaydhi FA, Shamsi A. Unravelling Binding of Human Serum Albumin with Galantamine: Spectroscopic, Calorimetric, and Computational Approaches. ACS OMEGA 2022; 7:34370-34377. [PMID: 36188253 PMCID: PMC9521020 DOI: 10.1021/acsomega.2c04004] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/27/2022] [Accepted: 08/10/2022] [Indexed: 06/16/2023]
Abstract
Human serum albumin (HSA), an abundant plasma protein, binds to various ligands, acting as a transporter for numerous endogenous and exogenous substances. Galantamine (GAL), an alkaloid, treats cognitive decline in mild to moderate Alzheimer's disease and other memory impairments. A vital step in pharmacological profiling involves the interaction of plasma protein with the drugs, and this serves as an essential platform for pharmaceutical industry advancements. This study is carried out to understand the binding mechanism of GAL with HSA using computational and experimental approaches. Molecular docking revealed that GAL preferentially occupies Sudlow's site I, i.e., binds to subdomain IIIA. The results unveiled that GAL binding does not induce any conformational change in HSA and hence does not compromise the functionality of HSA. Molecular dynamics simulation (250 ns) deciphered the stability of the HSA-GAL complex. We performed the fluorescence binding and isothermal titration calorimetry (ITC) to analyze the actual binding of GAL with HSA. The results suggested that GAL binds to HSA with a significant binding affinity. ITC measurements also delineated thermodynamic parameters associated with the binding of GAL to HSA. Altogether, the present study deciphers the binding mechanism of GAL with HSA.
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Affiliation(s)
- Ghulam Md Ashraf
- Pre-Clinical
Research Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah 21589, Saudi Arabia
- Department
of Medical Laboratory Sciences, Faculty of Applied Medical Sciences, King Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Debarati Das Gupta
- College
of Pharmacy, University of Michigan, 428 Church Street, Ann Arbor, Michigan 48109, United States
| | - Mohammad Zubair Alam
- Pre-Clinical
Research Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah 21589, Saudi Arabia
- Department
of Medical Laboratory Sciences, Faculty of Applied Medical Sciences, King Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Saleh Salem Baeesa
- Division
of Neurosurgery, College of Medicine, King
Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Badrah S. Alghamdi
- Pre-Clinical
Research Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah 21589, Saudi Arabia
- Department
of Physiology, Faculty of Medicine, King
Abdulaziz University, Jeddah 21589, Saudi Arabia
- The
Neuroscience
Research Unit, Faculty of Medicine, King
Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Firoz Anwar
- Department
of Biochemistry, Faculty of Science, King
Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Thamer M. A. Alqurashi
- Department
of Pharmacology, Faculty of Medicine, King
Abdul-Aziz University, Rabigh 25724, Saudi Arabia
| | - Waleed Al Abdulmonem
- Department
of Pathology, College of Medicine, Qassim
University, Buraydah 52571, Saudi Arabia
| | - Mohammed A. Alyousef
- Division of Neurosurgery, King
Abdulaziz
University Hospital, Jeddah 21589, Saudi Arabia
| | - Fahad A. Alhumaydhi
- Department of Medical Laboratories, College of Applied
Medical Sciences, Qassim University, Buraydah 52571, Saudi Arabia
| | - Anas Shamsi
- Centre for Interdisciplinary Research in
Basic Sciences, Jamia Millia Islamia, Jamia Nagar, New Delhi 110025, India
- Centre of Medical and Bio-Allied Health Sciences Research, Ajman University, P.O.
Box Number 346, Ajman, United Arab Emirates
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4
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Shahwan M, Alhumaydhi FA, Sharaf SE, Alghamdi BS, Baeesa S, Tayeb HO, Ashraf GM, Shamsi A. Computational insight into the binding of bryostatin 1 with ferritin: implication of natural compounds in Alzheimer's disease therapeutics. J Biomol Struct Dyn 2022:1-11. [PMID: 35787781 DOI: 10.1080/07391102.2022.2092552] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Abstract
Neuronal damage in iron-sensitive brain regions occurs as a result of iron dyshomeostasis. Increased iron levels and iron-related pathogenic triggers are associated with neurodegenerative diseases, including Alzheimer's disease (AD). Ferritin is a key player involved in iron homeostasis. Major pathological hallmarks of AD are amyloid plaques, neurofibrillary tangles (NFTs) and synaptic loss that lead to cognitive dysfunction and memory loss. Natural compounds persist in being the most excellent molecules in the area of drug discovery because of their different range of therapeutic applications. Bryostatins are naturally occurring macrocyclic lactones that can be implicated in AD therapeutics. Among them, Bryostatin 1 regulates protein kinase C, a crucial player in AD pathophysiology, thus highlighting the importance of bryostatin 1 in AD management. Thus, this study explores the binding mechanism of Bryotstain 1 with ferritin. In this work, the molecular docking calculations revealed that bryostatin 1 has an appreciable binding potential towards ferritin by forming stable hydrogen bonds (H-bonds). Molecular dynamics simulation studies deciphered the binding mechanism and conformational dynamics of ferrritin-bryostatin 1 system. The analyses of root mean square deviation, root mean square fluctuations, Rg, solvent accessible surface area, H-bonds and principal component analysis revealed the stability of the ferritin-bryostatin 1 docked complex throughout the trajectory of 100 ns. Moreover, the free energy landscape analysis advocated that the ferritin-bryostatin 1 complex stabilized to the global minimum. Altogether, the present work delineated the binding of bryostatin 1 with ferritin that can be implicated in the management of AD.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Moyad Shahwan
- College of Pharmacy & Health sciences, Ajman University, Ajman, United Arab Emirates.,Centre of Medical and Bio-Allied Health Sciences Research, Ajman University, Ajman, United Arab Emirates
| | - Fahad A Alhumaydhi
- Department of Medical Laboratories, College of Applied Medical Sciences, Qassim University, Buraydah, Saudi Arabia
| | - Sharaf E Sharaf
- Pharmaceutical Chemistry Department, College of Pharmacy, Umm Al-Qura University, Makkah, Saudi Arabia.,Clinical Research Administration, Executive Administration of Research and Innovation, King Abdullah Medical City in Holy Capital, Makkah, Saudi Arabia
| | - Badrah S Alghamdi
- Department of Physiology, Faculty of Medicine, King Abdulaziz University, Jeddah, Saudi Arabia.,Pre-Clinical Research Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah, Saudi Arabia.,The Neuroscience Research Unit, Faculty of Medicine, King Abdulaziz University, Jeddah, Saudi Arabia
| | - Saleh Baeesa
- Division of Neurosurgery, College of Medicine, King Abdulaziz University, Jeddah, Saudi Arabia
| | - Haythum O Tayeb
- The Neuroscience Research Unit, Faculty of Medicine, King Abdulaziz University, Jeddah, Saudi Arabia.,Division of Neurology, Department of Internal Medicine, King Abdulaziz University, Jeddah, Saudi Arabia
| | - Ghulam Md Ashraf
- Pre-Clinical Research Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah, Saudi Arabia.,Department of Medical Laboratory Sciences, Faculty of Applied Medical Sciences, King Abdulaziz University, Jeddah, Saudi Arabia
| | - Anas Shamsi
- Centre of Medical and Bio-Allied Health Sciences Research, Ajman University, Ajman, United Arab Emirates.,Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, Jamia Nagar, New Delhi, India
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Zia MK, Siddiqui T, Ahsan H, Khan FH. Comprehensive insight into the molecular interaction of an anticancer drug-ifosfamide with human alpha-2-macroglobulin: biophysical and in silico studies. J Biomol Struct Dyn 2022; 40:3907-3916. [PMID: 33267704 DOI: 10.1080/07391102.2020.1852115] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Abstract
Ifosfamide is an active alkylating chemotherapeutic drug chemically related to nitrogen mustard. The pharmacokinetics of drugs is affected upon binding with protein, making the studies on drug-protein interaction promising. The present study investigates the interaction between ifosfamide and human antiproteinase-alpha-2-macroglobulin (α2M) by using multi-spectroscopic and in silico techniques. The UV-visible absorption, intrinsic fluorescence and circular dichroism (CD) spectroscopic methods were employed to unveil the mode and mechanism of ifosfamide-α2M interaction. Fluorescence quenching studies performed at three different temperatures indicated that ifosfamide-α2M complex formation involves static quenching. Far UV-CD spectra revealed a minor alteration in the secondary structure of α2M instigated by ifosfamide. The thermodynamic parameters determined by fluorescence quenching experiment and isothermal titration calorimetry (ITC) suggested that the complex between ifosfamide and α2M involves hydrogen bonding and hydrophobic interactions. Molecular docking illustrates that ifosfamide binds with moderate affinity to Lys1240, Asn173, Ser957, Leu955, Asp953, Lys1216 and Thr1236 residues during the interaction. Molecular dynamic (MD) simulation suggested that the ifosfamide forms a stable complex with α2M. Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Mohammad Khalid Zia
- Department of Biochemistry, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, India
| | - Tooba Siddiqui
- Department of Biochemistry, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, India
| | - Haseeb Ahsan
- Faculty of Dentistry, Department of Biochemistry, Jamia Millia Islamia, Jamia Nagar, New Delhi, India
| | - Fahim Halim Khan
- Department of Biochemistry, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, India
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6
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Shamsi A, Shahwan M, Alhumaydhi FA, Alwashmi ASS, Aljasir MA, Alsagaby SA, Al Abdulmonem W, Hassan MI, Islam A. Spectroscopic, calorimetric and in silico insight into the molecular interactions of Memantine with human transferrin: Implications of Alzheimer's drugs. Int J Biol Macromol 2021; 190:660-666. [PMID: 34508722 DOI: 10.1016/j.ijbiomac.2021.09.017] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Revised: 07/28/2021] [Accepted: 09/03/2021] [Indexed: 10/20/2022]
Abstract
Human transferrin (Tf) is an iron-binding blood plasma glycoprotein that controls free iron in biological fluids. Tf is a liver-produced protein that binds iron very tightly but reversibly and is the most significant iron pool. Memantine is an orally administrative N-methyl-d-aspartate glutamate receptor antagonist used to slow the progression of moderate-to-severe Alzheimer's disease (AD) and dementia. Here, we have investigated the molecular interactions of Memantine with Tf using molecular docking, dynamics simulation and in vitro binding studies. Molecular docking study revealed many close interactions of Memantine towards Tf with an appreciable binding affinity. The docking results were further validated by molecular dynamics (MD) simulation studies, followed by essential dynamics and free energy landscapes analyses. Memantine shows a good binding affinity to the Tf with a binding constant (K) of 105 M-1. Isothermal titration calorimetry (ITC) also advocated the spontaneous binding of memantine to Tf. The study proposed that the Memantine in complex with Tf is stable in the simulated trajectory with minimal structural changes. The study suggested that the Tf-Memantine interactions can be further explored in AD therapy after critical exploration.
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Affiliation(s)
- Anas Shamsi
- Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, Jamia Nagar, New Delhi 110025, India; Centre of Medical and Bio-Allied Health Sciences Research, Ajman University, United Arab Emirates.
| | - Moyad Shahwan
- College of Pharmacy & Health Sciences, Ajman University, Ajman, United Arab Emirates; Centre of Medical and Bio-Allied Health Sciences Research, Ajman University, United Arab Emirates
| | - Fahad A Alhumaydhi
- Department of Medical Laboratories, College of Applied Medical Sciences, Qassim University, Buraydah, Saudi Arabia
| | - Ameen S S Alwashmi
- Department of Medical Laboratories, College of Applied Medical Sciences, Qassim University, Buraydah, Saudi Arabia
| | - Mohammad Abdullah Aljasir
- Department of Medical Laboratories, College of Applied Medical Sciences, Qassim University, Buraydah, Saudi Arabia
| | - Suliman A Alsagaby
- Department of Medical Laboratory Sciences, College of Applied Medical Sciences, Majmaah University, Majmaah 11932, Saudi Arabia
| | - Waleed Al Abdulmonem
- Department of Pathology, College of Medicine, Qassim University, Buraydah, Saudi Arabia
| | - Md Imtaiyaz Hassan
- Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, Jamia Nagar, New Delhi 110025, India
| | - Asimul Islam
- Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, Jamia Nagar, New Delhi 110025, India.
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7
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Alhumaydhi FA, Aljasir MA, Aljohani AS, Alsagaby SA, Alwashmi AS, Shahwan M, Hassan MI, Islam A, Shamsi A. Probing the interaction of memantine, an important Alzheimer's drug, with human serum albumin: In silico and in vitro approach. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2021.116888] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
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8
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Understanding the binding between Rosmarinic acid and serum albumin: In vitro and in silico insight. J Mol Liq 2020. [DOI: 10.1016/j.molliq.2020.113348] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
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9
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Zakariya SM, Furkan M, Zaman M, Chandel TI, Ali SM, Uversky VN, Khan RH. An in-vitro elucidation of inhibitory potential of carminic acid: Possible therapeutic approach for neurodegenerative diseases. J Mol Liq 2020. [DOI: 10.1016/j.molliq.2020.112692] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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10
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In-vitro binding analysis of bovine serum albumin with sulindac/chlorpromazine: Spectroscopic, calorimetric and computational approaches. J Mol Liq 2020. [DOI: 10.1016/j.molliq.2019.112124] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
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11
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Shamsi A, Mohammad T, Anwar S, Alajmi MF, Hussain A, Hassan MI, Ahmad F, Islam A. Probing the interaction of Rivastigmine Tartrate, an important Alzheimer's drug, with serum albumin: Attempting treatment of Alzheimer's disease. Int J Biol Macromol 2020; 148:533-542. [PMID: 31954794 DOI: 10.1016/j.ijbiomac.2020.01.134] [Citation(s) in RCA: 49] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2019] [Revised: 01/11/2020] [Accepted: 01/14/2020] [Indexed: 01/16/2023]
Abstract
The present study was aimed at investigating the binding between an important drug of Alzheimer's therapy, Rivastigmine tartrate (RT), with Bovine serum albumin (BSA). BSA is a model protein that is increasingly being used for studies related to drug-protein interaction owing to its structural similarity with human serum albumin (HSA) which is extremely abundant in the circulatory system comprising around 60% of the total plasma protein. Fluorescence spectroscopy implied that complex formation is taking place between BSA and RT; binding constant calculated was of the order of 104 M-1 implicative of the strength of this interaction. Fluorescence spectroscopy was carried out at three different temperatures in a bid to find out the operative mode of quenching; static quenching was taking place for RT-BSA interaction with a binding constant of 2.5 × 104 M-1 at 298 K. Further, changes in Far UV CD spectra clearly implied that RT induces structural transition in BSA suggestive of RT-BSA complex formation. The negative value of ∆G0 as obtained from fluorescence spectroscopy and isothermal titration calorimetry (ITC) suggests the reaction to be spontaneous and thermodynamically favorable. Additionally, molecular docking was employed to investigate different forces and critical residues involved in RT-BSA interaction. Furthermore, all-atom molecular dynamics simulation for 50 ns was performed on the BSA-RT complex to investigate its conformational behavior, stability and dynamics.
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Affiliation(s)
- Anas Shamsi
- Centre for Interdisciplinary Research in basic Sciences, Jamia Millia Islamia, New Delhi, India
| | - Taj Mohammad
- Centre for Interdisciplinary Research in basic Sciences, Jamia Millia Islamia, New Delhi, India
| | - Saleha Anwar
- Centre for Interdisciplinary Research in basic Sciences, Jamia Millia Islamia, New Delhi, India
| | - Mohamed F Alajmi
- Department of Pharmacognosy, College of Pharmacy, King Saud University, Riyadh, Saudi Arabia
| | - Afzal Hussain
- Department of Pharmacognosy, College of Pharmacy, King Saud University, Riyadh, Saudi Arabia
| | - Md Imtaiyaz Hassan
- Centre for Interdisciplinary Research in basic Sciences, Jamia Millia Islamia, New Delhi, India
| | - Faizan Ahmad
- Centre for Interdisciplinary Research in basic Sciences, Jamia Millia Islamia, New Delhi, India
| | - Asimul Islam
- Centre for Interdisciplinary Research in basic Sciences, Jamia Millia Islamia, New Delhi, India.
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12
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Rizvi MA, Hussain Z, Ali F, Amin A, Mir SH, Rydzek G, Jagtap RM, Pardeshi SK, Qadri RA, Ariga K. Bioactive supra decorated thiazolidine-4-carboxylic acid derivatives attenuate cellular oxidative stress by enhancing catalase activity. Phys Chem Chem Phys 2020; 22:7942-7951. [DOI: 10.1039/d0cp00253d] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Bioactive (2S,4R)-3-(tert-butoxycarbonyl)-2-(2-hydroxyphenyl)thiazolidine-4-carboxylic acid molecules restructure enzymes through complexation, allowing enhancing their activity to protect cells from oxidative stress.
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Affiliation(s)
| | - Zakir Hussain
- Department of Chemistry
- University of Kashmir
- Srinagar
- India
| | - Fasil Ali
- Department of Studies and Research in Biochemistry
- Mangalore University
- India
| | - Asif Amin
- Department of Biotechnology
- University of Kashmir
- Srinagar 190006
- India
| | - Sajjad Husain Mir
- Advanced Materials and Bio Engineering Research Centre (AMBER)
- Ireland
- Department of Chemistry
- Trinity College Dublin
- The University of Dublin
| | - Gaulthier Rydzek
- Institut Charles Gerhardt Montpellier
- UMR 5253
- CNRS
- ENSCM
- Univ. Montpellier
| | - Rohidas M. Jagtap
- Department of Chemistry
- Savitribai Phule Pune University
- Pune 411007
- India
| | | | - Raies A. Qadri
- Department of Biotechnology
- University of Kashmir
- Srinagar 190006
- India
| | - Katsuhiko Ariga
- World Premier International Center for Materials Nanoarchitectonics (MANA)
- National Institute for Materials Science (NIMS)
- Tsukuba 305-0044
- Japan
- Graduate School of Frontier Sciences
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13
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Almehizia AA, AlRabiah H, Bakheit AH, Hassan ESG, Herqash RN, Abdelhameed AS. Spectroscopic and molecular docking studies reveal binding characteristics of nazartinib (EGF816) to human serum albumin. ROYAL SOCIETY OPEN SCIENCE 2020. [PMID: 32218978 DOI: 10.5061/dryad.05c6v93] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
The interactions of novel anti-cancer therapeutic agents with the different plasma and tissue components, specifically serum albumins, have lately gained considerable attention due to the significant influence of such interactions on the pharmacokinetics and/or -dynamics of this important class of therapeutics. Nazartinib (EGF 816; NAZ) is a new anti-cancer candidate proposed as a third-generation epidermal growth factor receptor tyrosine kinase inhibitor that is being developed and clinically tested for the management of non-small cell lung cancer. The current study aimed to characterize the interaction between NAZ and human serum albumin (HSA) using experimental and theoretical approaches. Experimental results of fluorescence quenching of HSA induced by NAZ revealed the development of a statically formed complex between NAZ and HSA. Interpretation of the observed fluorescence data using Stern-Volmer, Lineweaver-Burk and double-log formulae resulted in binding constants for HSA-NAZ complex in the range of (2.34-2.81) × 104 M-1 over the studied temperatures. These computed values were further used to elucidate thermodynamic attributes of the interaction, which showed that NAZ spontaneously binds to HSA with a postulated electrostatic force-driven interaction. This was further verified by theoretical examination of the NAZ docking on the HSA surface that revealed an HSA-NAZ complex where NAZ is bound to HSA Sudlow site I driven by hydrogen bonding in addition to electrostatic forces in the form of pi-H bond. The HSA binding pocket for NAZ was shown to encompass ARG 257, ARG 222, LYS 199 and GLU 292 with a total binding energy of -25.59 kJ mol-1.
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Affiliation(s)
- Abdulrahman A Almehizia
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, PO Box 2457, Riyadh 11451, Saudi Arabia
| | - Haitham AlRabiah
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, PO Box 2457, Riyadh 11451, Saudi Arabia
| | - Ahmed H Bakheit
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, PO Box 2457, Riyadh 11451, Saudi Arabia
- Department of Chemistry, Faculty of Science and Technology, El-Neelain University, PO Box 12702, Khartoum 11121, Sudan
| | - Eman S G Hassan
- Developmental Pharmacology Department, National Organization for Drug Control and Research, Giza, Egypt
| | - Rashed N Herqash
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, PO Box 2457, Riyadh 11451, Saudi Arabia
| | - Ali Saber Abdelhameed
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, PO Box 2457, Riyadh 11451, Saudi Arabia
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14
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Almehizia AA, AlRabiah H, Bakheit AH, Hassan ESG, Herqash RN, Abdelhameed AS. Spectroscopic and molecular docking studies reveal binding characteristics of nazartinib (EGF816) to human serum albumin. ROYAL SOCIETY OPEN SCIENCE 2020; 7:191595. [PMID: 32218978 PMCID: PMC7029911 DOI: 10.1098/rsos.191595] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/12/2019] [Accepted: 10/28/2019] [Indexed: 05/05/2023]
Abstract
The interactions of novel anti-cancer therapeutic agents with the different plasma and tissue components, specifically serum albumins, have lately gained considerable attention due to the significant influence of such interactions on the pharmacokinetics and/or -dynamics of this important class of therapeutics. Nazartinib (EGF 816; NAZ) is a new anti-cancer candidate proposed as a third-generation epidermal growth factor receptor tyrosine kinase inhibitor that is being developed and clinically tested for the management of non-small cell lung cancer. The current study aimed to characterize the interaction between NAZ and human serum albumin (HSA) using experimental and theoretical approaches. Experimental results of fluorescence quenching of HSA induced by NAZ revealed the development of a statically formed complex between NAZ and HSA. Interpretation of the observed fluorescence data using Stern-Volmer, Lineweaver-Burk and double-log formulae resulted in binding constants for HSA-NAZ complex in the range of (2.34-2.81) × 104 M-1 over the studied temperatures. These computed values were further used to elucidate thermodynamic attributes of the interaction, which showed that NAZ spontaneously binds to HSA with a postulated electrostatic force-driven interaction. This was further verified by theoretical examination of the NAZ docking on the HSA surface that revealed an HSA-NAZ complex where NAZ is bound to HSA Sudlow site I driven by hydrogen bonding in addition to electrostatic forces in the form of pi-H bond. The HSA binding pocket for NAZ was shown to encompass ARG 257, ARG 222, LYS 199 and GLU 292 with a total binding energy of -25.59 kJ mol-1.
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Affiliation(s)
- Abdulrahman A. Almehizia
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, PO Box 2457, Riyadh 11451, Saudi Arabia
| | - Haitham AlRabiah
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, PO Box 2457, Riyadh 11451, Saudi Arabia
| | - Ahmed H. Bakheit
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, PO Box 2457, Riyadh 11451, Saudi Arabia
- Department of Chemistry, Faculty of Science and Technology, El-Neelain University, PO Box 12702, Khartoum 11121, Sudan
| | - Eman S. G. Hassan
- Developmental Pharmacology Department, National Organization for Drug Control and Research, Giza, Egypt
| | - Rashed N. Herqash
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, PO Box 2457, Riyadh 11451, Saudi Arabia
| | - Ali Saber Abdelhameed
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, PO Box 2457, Riyadh 11451, Saudi Arabia
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Khatun S, Sindhu A, Venkatesu P. Can stem bromelain, a pineapple waste product, be used as a drug alternative? A mechanistic insight into protein–protein interactions. NEW J CHEM 2020. [DOI: 10.1039/d0nj02511a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Binding of stem bromelain to bovine serum albumin induced conformational changes, as shown by various biophysical techniques.
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Affiliation(s)
- Samima Khatun
- Department of Chemistry
- University of Delhi
- Delhi
- India
- Department of Chemistry
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16
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Siddiqui T, Zia MK, Ali SS, Ahsan H, Khan FH. Investigating hydrogen peroxide induced damage to alpha-2-macroglobulin: Biophysical and thermodynamic study. J Mol Struct 2019. [DOI: 10.1016/j.molstruc.2019.06.017] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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17
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Shamsi A, Mohammad T, Khan MS, Shahwan M, Husain FM, Rehman MT, Hassan MI, Ahmad F, Islam A. Unraveling Binding Mechanism of Alzheimer's Drug Rivastigmine Tartrate with Human Transferrin: Molecular Docking and Multi-Spectroscopic Approach towards Neurodegenerative Diseases. Biomolecules 2019; 9:biom9090495. [PMID: 31533274 PMCID: PMC6770857 DOI: 10.3390/biom9090495] [Citation(s) in RCA: 49] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2019] [Revised: 08/16/2019] [Accepted: 08/20/2019] [Indexed: 02/07/2023] Open
Abstract
Studying drug–protein interactions has gained significant attention lately, and this is because the majority of drugs interact with proteins, thereby altering their structure and, moreover, their functionality. Rivastigmine tartrate (RT) is a drug that is in use for mild to moderate Alzheimer therapy. This study was targeted to characterize the interaction between human transferrin (hTf) and RT by employing spectroscopy, isothermal titration calorimetry (ITC), and molecular docking studies. Experimental results of fluorescence quenching of hTf induced by RT implied the formation of a static complex between hTf and RT. Further elucidation of the observed fluorescence data retorting Stern–Volmer and modified Stern–Volmer resulted in binding constants for hTf–RT complex of the order 104 M−1 over the studied temperatures. Thermodynamic parameters of hTf–RT interaction were elucidated further by employing these obtained binding constant values. It was quite evident from obtained thermodynamic attributes that RT spontaneously binds to hTf with a postulated existence of hydrogen bonding or Van der Waals forces. Further, Circular dichroism spectroscopy (CD) also confirmed RT–hTf complex formation owing to upward movement of CD spectra in the presence of RT. ITC profiles advocated the existence of reaction to be spontaneous. Moreover, molecular docking further revealed that the important residues play a pivotal role in RT–hTf interaction. The findings of this study can be of a significant benefit to the drug-designing industry in this disease-prone era.
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Affiliation(s)
- Anas Shamsi
- Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, New Delhi 110025, India
| | - Taj Mohammad
- Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, New Delhi 110025, India
| | - Mohd Shahnawaz Khan
- Department of Biochemistry, College of Sciences, King Saud University, Riyadh 11451, Saudi Arabia
| | - Moyad Shahwan
- College of Pharmacy & Health sciences, Ajman University, Ajman, UAE
| | - Fohad Mabood Husain
- Department of Food Science and Nutrition, Faculty of Food and Agricultural Sciences, King Saud University, Riyadh 11451, Saudi Arabia
| | - Md Tabish Rehman
- Department of Pharmacognosy, College of Pharmacy, King Saud University, Riyadh 11451, Saudi Arabia
| | - Md Imtaiyaz Hassan
- Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, New Delhi 110025, India
| | - Faizan Ahmad
- Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, New Delhi 110025, India
| | - Asimul Islam
- Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, New Delhi 110025, India.
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Agrawal R, Siddiqi MK, Thakur Y, Tripathi M, Asatkar AK, Khan RH, Pande R. Explication of bovine serum albumin binding with naphthyl hydroxamic acids using a multispectroscopic and molecular docking approach along with its antioxidant activity. LUMINESCENCE 2019; 34:628-643. [PMID: 31190435 DOI: 10.1002/bio.3645] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2018] [Revised: 04/16/2019] [Accepted: 04/18/2019] [Indexed: 12/16/2022]
Abstract
In the present investigation, the protein-binding properties of naphthyl-based hydroxamic acids (HAs), N-1-naphthyllaurohydroxamic acid (1) and N-1-naphthyl-p-methylbenzohydroxamic acid (2) were studied using bovine serum albumin (BSA) and UV-visible spectroscopy, fluorescence spectroscopy, diffuse reflectance spectroscopy-Fourier transform infrared (DRS-FTIR), circular dichroism (CD), and cyclic voltammetry along with computational approaches, i.e. molecular docking. Alteration in the antioxidant activities of compound 1 and compound 2 during interaction with BSA was also studied. From the fluorescence studies, thermodynamic parameters such as Gibb's free energy (ΔG), entropy change (ΔS) and enthalpy change (ΔH) were calculated at five different temperatures (viz., 298, 303, 308, 313 or 318 K) for the HAs-BSA interaction. The results suggested that the binding process was enthalpy driven with dominating hydrogen bonds and van der Waals' interactions for both compounds. Warfarin (WF) and ibuprofen (IB) were used for competitive site-specific marker binding interaction and revealed that compound 1 and compound 2 were located in subdomain IIA (Sudlow's site I) on the BSA molecule. Conclusions based on above-applied techniques signify that various non-covalent forces were involved during the HAs-BSA interaction. Therefore the resulted HAs-BSA interaction manifested its effect in transportation, distribution and metabolism for the drug in the blood circulation system, therefore establishing HAs as a drug-like molecule.
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Affiliation(s)
- Rainy Agrawal
- School of Studies in Chemistry, Pt. Ravishankar Shukla University, Raipur, Chhattisgarh, India
| | | | - Yamini Thakur
- School of Studies in Chemistry, Pt. Ravishankar Shukla University, Raipur, Chhattisgarh, India
| | - Mamta Tripathi
- School of Studies in Chemistry, Pt. Ravishankar Shukla University, Raipur, Chhattisgarh, India
| | | | - Rizwan Hasan Khan
- Interdisciplinary Biotechnology Unit, Aligarh Muslim University, Aligarh, 202002, Uttar Pradesh, India
| | - Rama Pande
- School of Studies in Chemistry, Pt. Ravishankar Shukla University, Raipur, Chhattisgarh, India
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Zia MK, Siddiqui T, Ali SS, Ahsan H, Khan FH. Deciphering the binding of dutasteride with human alpha-2-macroglobulin: Molecular docking and calorimetric approach. Int J Biol Macromol 2019; 133:1081-1089. [DOI: 10.1016/j.ijbiomac.2019.04.180] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2019] [Revised: 04/26/2019] [Accepted: 04/26/2019] [Indexed: 10/26/2022]
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20
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Protein misfolding, aggregation and mechanism of amyloid cytotoxicity: An overview and therapeutic strategies to inhibit aggregation. Int J Biol Macromol 2019; 134:1022-1037. [PMID: 31128177 DOI: 10.1016/j.ijbiomac.2019.05.109] [Citation(s) in RCA: 67] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2019] [Revised: 05/18/2019] [Accepted: 05/18/2019] [Indexed: 12/18/2022]
Abstract
Protein and peptides are converted from their soluble forms into highly ordered fibrillar aggregates under various conditions inside the cell. Such transitions confer diverse neurodegenerative diseases including Alzheimer's disease, Huntington's disease Prion's disease, Parkinson's disease, polyQ and share abnormal folding of potentially cytotoxic protein species linked with degeneration and death of precise neuronal populations. Presently, major advances are made to understand and get detailed insight into the structural basis and mechanism of amyloid formation, cytotoxicity and therapeutic approaches to combat them. Here we highlight classifies and summarizes the detailed overview of protein misfolding and aggregation at their molecular level including the factors that promote protein aggregation under in vivo and in vitro conditions. In addition, we describe the recent technologies that aid the characterization of amyloid aggregates along with several models that might be responsible for amyloid induced cytotoxicity to cells. Overview on the inhibition of amyloidosis by targeting different small molecules (both natural and synthetic origin) have been also discussed, that provides important approaches to identify novel targets and develop specific therapeutic strategies to combat protein aggregation related neurodegenerative diseases.
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Agrawal R, Thakur Y, Tripathi M, Siddiqi MK, Khan RH, Pande R. Elucidating the binding propensity of naphthyl hydroxamic acid to human serum albumin (HSA): Multi-spectroscopic and molecular modeling approach. J Mol Struct 2019. [DOI: 10.1016/j.molstruc.2019.01.067] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
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22
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Novel BTK inhibitor acalabrutinib (ACP-196) tightly binds to site I of the human serum albumin as observed by spectroscopic and computational studies. Int J Biol Macromol 2019; 127:536-543. [DOI: 10.1016/j.ijbiomac.2019.01.083] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2018] [Revised: 01/17/2019] [Accepted: 01/18/2019] [Indexed: 12/27/2022]
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23
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Maurya N, Maurya JK, Singh UK, Dohare R, Zafaryab M, Moshahid Alam Rizvi M, Kumari M, Patel R. In Vitro Cytotoxicity and Interaction of Noscapine with Human Serum Albumin: Effect on Structure and Esterase Activity of HSA. Mol Pharm 2019; 16:952-966. [DOI: 10.1021/acs.molpharmaceut.8b00864] [Citation(s) in RCA: 62] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Neha Maurya
- Biophysical Chemistry Laboratory, Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia (A Central University), New Delhi 110025, India
| | - Jitendra Kumar Maurya
- Biophysical Chemistry Laboratory, Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia (A Central University), New Delhi 110025, India
| | - Upendra Kumar Singh
- Biophysical Chemistry Laboratory, Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia (A Central University), New Delhi 110025, India
| | - Ravins Dohare
- Nonlinear Dynamic Laboratory, Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia (A Central University), New Delhi 110025, India
| | - Md Zafaryab
- Department of Biosciences, Jamia Millia Islamia (A Central University), New Delhi 110025, India
| | - M. Moshahid Alam Rizvi
- Department of Biosciences, Jamia Millia Islamia (A Central University), New Delhi 110025, India
| | - Meena Kumari
- Biophysical Chemistry Laboratory, Department of Chemistry, IIT Delhi, Hauzkhas, New Delhi 110016, India
| | - Rajan Patel
- Biophysical Chemistry Laboratory, Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia (A Central University), New Delhi 110025, India
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24
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Molecular interactions of AL3818 (anlotinib) to human serum albumin as revealed by spectroscopic and molecular docking studies. J Mol Liq 2019. [DOI: 10.1016/j.molliq.2018.10.025] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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25
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Lin H, Xia X, Jiang X, Bi S, Wang H, Zhai Y, Wen W, Guo X. Bioavailability of Pyrene Associated with Different Types of Protein Compounds: Direct Evidence for Its Uptake by Daphnia magna. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2018; 52:9851-9860. [PMID: 30102861 DOI: 10.1021/acs.est.8b03349] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
The protein-like dissolved organic matter (DOM) is ubiquitous in aquatic environments. However, the bioavailability of protein-like DOM-associated hydrophobic organic compounds (HOCs) is not well-understood, and in particular, the direct evidence of their uptake by organisms is scarce. In the present work, tryptone (2000 Da), bovine serum albumin (BSA; 66 000 Da), and phycocyanin (120 000 Da) were chosen as model protein-like DOM, which were labeled by commercial fluorescein (cy5) to investigate the uptake mechanisms of protein compound-associated pyrene (a typical HOC) by Daphnia magna. The pyrene concentration in the tissues except the gut and immobilization of D. magna were detected to calculate the bioavailable fraction of protein compound-associated pyrene when the freely dissolved pyrene concentration was controlled through passive dosing devices. The results demonstrated that the tryptone could permeate cellular membrane and directly enter the tissues of D. magna from the exposure solutions, whereas BSA and phycocyanin might indirectly enter the tissues from the gut. A part of pyrene associated with protein compounds was bioavailable to D. magna; the order of their bioavailable fractions was trypone (54.6-58.1%) > phycocyanin (21.6-32.8%) > BSA (17.7-26.8%). The difference was principally related to the uptake mechanisms of pyrene associated with different types of protein. This work suggests that the protein compound-associated HOCs should be considered to evaluate the bioavailability and eco-environmental hazard of HOCs in natural waters.
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Affiliation(s)
- Hui Lin
- State Key Laboratory of Water Environment Simulation, School of Environment , Beijing Normal University , Beijing 100875 , China
| | - Xinghui Xia
- State Key Laboratory of Water Environment Simulation, School of Environment , Beijing Normal University , Beijing 100875 , China
| | - Xiaoman Jiang
- State Key Laboratory of Water Environment Simulation, School of Environment , Beijing Normal University , Beijing 100875 , China
| | - Siqi Bi
- State Key Laboratory of Water Environment Simulation, School of Environment , Beijing Normal University , Beijing 100875 , China
| | - Haotian Wang
- State Key Laboratory of Water Environment Simulation, School of Environment , Beijing Normal University , Beijing 100875 , China
| | - Yawei Zhai
- State Key Laboratory of Water Environment Simulation, School of Environment , Beijing Normal University , Beijing 100875 , China
| | - Wu Wen
- State Key Laboratory of Water Environment Simulation, School of Environment , Beijing Normal University , Beijing 100875 , China
| | - Xuejun Guo
- State Key Laboratory of Water Environment Simulation, School of Environment , Beijing Normal University , Beijing 100875 , China
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26
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Farhadian S, Shareghi B, Momeni L, Abou-Zied OK, Sirotkin VA, Tachiya M, Saboury AA. Insights into the molecular interaction between sucrose and α-chymotrypsin. Int J Biol Macromol 2018; 114:950-960. [DOI: 10.1016/j.ijbiomac.2018.03.143] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2018] [Revised: 03/19/2018] [Accepted: 03/23/2018] [Indexed: 12/12/2022]
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27
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Ajmal MR, Almutairi F, Zaidi N, Alam P, Siddiqi MK, Khan MV, Zaman M, Ishtikhar M, Khan RH. Biophysical insights into the interaction of clofazimine with human alpha 1-acid glycoprotein: a multitechnique approach. J Biomol Struct Dyn 2018; 37:1390-1401. [DOI: 10.1080/07391102.2018.1461686] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/09/2023]
Affiliation(s)
- Mohammad Rehan Ajmal
- Interdisciplinary Biotechnology Unit, Aligarh Muslim University, Aligarh 202002, India
- Department of Biochemistry, Faculty of Sciences, University of Tabuk, Tabuk 71491, Kingdom of Saudi Arabia
| | - Fahad Almutairi
- Department of Biochemistry, Faculty of Sciences, University of Tabuk, Tabuk 71491, Kingdom of Saudi Arabia
| | - Nida Zaidi
- Interdisciplinary Biotechnology Unit, Aligarh Muslim University, Aligarh 202002, India
| | - Parvez Alam
- Interdisciplinary Biotechnology Unit, Aligarh Muslim University, Aligarh 202002, India
| | | | - Mohsin Vahid Khan
- Interdisciplinary Biotechnology Unit, Aligarh Muslim University, Aligarh 202002, India
| | - Masihuz Zaman
- Interdisciplinary Biotechnology Unit, Aligarh Muslim University, Aligarh 202002, India
| | - Mohd Ishtikhar
- Interdisciplinary Biotechnology Unit, Aligarh Muslim University, Aligarh 202002, India
| | - Rizwan Hasan Khan
- Interdisciplinary Biotechnology Unit, Aligarh Muslim University, Aligarh 202002, India
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Nusrat S, Khan RH. Exploration of ligand-induced protein conformational alteration, aggregate formation, and its inhibition: A biophysical insight. Prep Biochem Biotechnol 2018; 48:43-56. [PMID: 29106330 DOI: 10.1080/10826068.2017.1387561] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
The association of protein aggregates with plentiful human diseases has fascinated studies regarding the biophysical characterization of protein misfolding and ultimately their aggregate formation mechanism. Protein-ligand interaction, their mechanism, conformational changes by ligands, and protein aggregate formation have been studied upon exploiting experimental techniques and computational methodologies. Such studies for the exploration of ligand-induced conformational changes in protein, misfolding and aggregation, has confirmed drastic progresses in the study of aggregate formation pathways. This review comprises of an inclusive description of contemporary experimental techniques as well as theoretical improvements in the interpretation of the conformational properties of protein. We have also discussed various factors responsible for the microenvironment change around protein that sequentially causes amyloidoses. Biophysical techniques and cell-based assays to gain comprehensive understandings of protein-ligand interaction, protein folding, and aggregation pathways have also been described. The promising therapeutic methods used to inhibit the protein fibrillogenesis have also been discussed.
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Affiliation(s)
- Saima Nusrat
- a Interdisciplinary Biotechnology Unit , Aligarh Muslim University , Aligarh , Uttar Pradesh , India
| | - Rizwan Hasan Khan
- a Interdisciplinary Biotechnology Unit , Aligarh Muslim University , Aligarh , Uttar Pradesh , India
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Hauser M, Qian C, King ST, Kauffman S, Naider F, Hettich RL, Becker JM. Identification of peptide-binding sites within BSA using rapid, laser-induced covalent cross-linking combined with high-performance mass spectrometry. J Mol Recognit 2017; 31. [PMID: 28994207 DOI: 10.1002/jmr.2680] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2017] [Revised: 08/31/2017] [Accepted: 09/17/2017] [Indexed: 11/07/2022]
Abstract
We are developing a rapid, time-resolved method using laser-activated cross-linking to capture protein-peptide interactions as a means to interrogate the interaction of serum proteins as delivery systems for peptides and other molecules. A model system was established to investigate the interactions between bovine serum albumin (BSA) and 2 peptides, the tridecapeptide budding-yeast mating pheromone (α-factor) and the decapeptide human gonadotropin-releasing hormone (GnRH). Cross-linking of α-factor, using a biotinylated, photoactivatable p-benzoyl-L-phenylalanine (Bpa)-modified analog, was energy-dependent and achieved within seconds of laser irradiation. Protein blotting with an avidin probe was used to detect biotinylated species in the BSA-peptide complex. The cross-linked complex was trypsinized and then interrogated with nano-LC-MS/MS to identify the peptide cross-links. Cross-linking was greatly facilitated by Bpa in the peptide, but some cross-linking occurred at higher laser powers and high concentrations of a non-Bpa-modified α-factor. This was supported by experiments using GnRH, a peptide with sequence homology to α-factor, which was likewise found to be cross-linked to BSA by laser irradiation. Analysis of peptides in the mass spectra showed that the binding site for both α-factor and GnRH was in the BSA pocket defined previously as the site for fatty acid binding. This model system validates the use of laser-activation to facilitate cross-linking of Bpa-containing molecules to proteins. The rapid cross-linking procedure and high performance of MS/MS to identify cross-links provides a method to interrogate protein-peptide interactions in a living cell in a time-resolved manner.
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Affiliation(s)
- Melinda Hauser
- Department of Microbiology, University of Tennessee, Knoxville, TN, USA
| | - Chen Qian
- Chemical Science Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
- UT-ORNL Graduate School of Genome Science and Technology, University of Tennessee, Knoxville, TN, USA
| | - Steven T King
- Chemical Science Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
- Department of Chemistry, University of Tennessee, Knoxville, TN, USA
| | - Sarah Kauffman
- Department of Microbiology, University of Tennessee, Knoxville, TN, USA
| | - Fred Naider
- Department of Chemistry and Macromolecular Assemblies Institute, College of Staten Island, CUNY, New York, NY, USA
- Programs in Biochemistry and Chemistry, Graduate Center, The City University of New York, New York, NY, USA
| | - Robert L Hettich
- Chemical Science Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
- UT-ORNL Graduate School of Genome Science and Technology, University of Tennessee, Knoxville, TN, USA
| | - Jeffrey M Becker
- Department of Microbiology, University of Tennessee, Knoxville, TN, USA
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Wang X, He LL, Liu B, Wang X, Xu L, Wang XF, Sun T. Decrease of the affinity of theophylline bind to serum proteins induced by flavonoids and their synergies on protein conformation. Int J Biol Macromol 2017; 107:1066-1073. [PMID: 28947221 DOI: 10.1016/j.ijbiomac.2017.09.080] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2017] [Revised: 09/16/2017] [Accepted: 09/20/2017] [Indexed: 12/12/2022]
Abstract
In this study, the single and simultaneous interactions of theophylline and flavonoids with human serum albumin (HSA) were studied by multi-spectroscopic and molecular docking approaches. The influences of flavonoids on the binding constant (Kb) and the binding distance (r) of theophylline bind to HSA were determined and the changes of HSA conformation caused by the synergies of theophylline and flavonoids were investigated. Because theophylline, rutin and baicalin are all bond to the same binding site, the competitive bind of theophylline and flavonoids to HSA leads to the reduction of the Ka value of theophylline binding to HSA. The addition of rutin and baicalin can increase the value of r of theophylline binding to HSA, which further confirm the existence of the competitive bind of theophylline and flavonoids to HSA. Additionally, the results of synchronous fluorescence, three-dimensional fluorescence and circular dichroism spectra indicate that the presence of rutin and baicalin can give rise to the further changes of HSA conformation. These results suggest that the intake of flavonoid-rich food and beverages can increase the serum concentrations of theophylline and induce a high incidence of toxic symptom in clinic.
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Affiliation(s)
- Xin Wang
- Department of Chemistry, College of Science, Northeastern University, Shenyang 110819, China; School of Pharmaceutical Sciences, Liaoning University, Shenyang 110036, China
| | - Ling-Ling He
- College of Applied Chemistry, Shenyang University of Chemical Technology, Shenyang 110142, China
| | - Bin Liu
- School of Pharmaceutical Sciences, Liaoning University, Shenyang 110036, China
| | - Xin Wang
- School of Pharmaceutical Sciences, Liaoning University, Shenyang 110036, China
| | - Liang Xu
- Department of Chemistry, College of Science, Northeastern University, Shenyang 110819, China; School of Pharmaceutical Sciences, Liaoning University, Shenyang 110036, China
| | - Xiao-Fang Wang
- School of Pharmaceutical Sciences, Liaoning University, Shenyang 110036, China
| | - Ting Sun
- Department of Chemistry, College of Science, Northeastern University, Shenyang 110819, China.
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