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Sinha P, Yadav AK. Repurposing integrase inhibitors against human T-lymphotropic virus type-1: a computational approach. J Biomol Struct Dyn 2024:1-12. [PMID: 38234060 DOI: 10.1080/07391102.2024.2304681] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2023] [Accepted: 01/07/2024] [Indexed: 01/19/2024]
Abstract
Adult T-cell Lymphoma (ATL) is caused by the delta retrovirus family member known as Human T-cell Leukaemia Type I (HTLV-1). Due to the unavailability of any cure, the study gained motivation to identify some repurposed drugs against the virus. A quick and accurate method of screening licensed medications for finding a treatment for HTLV-1 is by cheminformatics drug repurposing in order to analyze a dataset of FDA approved integrase antivirals against HTLV-1 infection. To determine how the antiviral medications interacted with the important residues in the HTLV-1 integrase active regions, molecular docking modeling was used. The steady behavior of the ligands inside the active region was then confirmed by molecular dynamics for the probable receptor-drug complexes. Cabotegravir, Raltegravir and Elvitegravir had the best docking scores with the target, indicating that they can tightly bind to the HTLV-1 integrase. Moreover, MD simulation revealed that the Cabotegravir-HTLV-1, Raltegravir-HTLV-1 and Elvitegravir-HTLV-1 interactions were stable. It is obvious that more testing of these medicines in both clinical trials and experimental tests is necessary to demonstrate their efficacy against HTLV-1 infection.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Prashasti Sinha
- Department of Physics, School of Physical & Decision Science, Babasaheb Bhimrao Ambedkar University, Lucknow, India
| | - Anil Kumar Yadav
- Department of Physics, School of Physical & Decision Science, Babasaheb Bhimrao Ambedkar University, Lucknow, India
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2
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Samal RR, Navani HS, Saha S, Kisan B, Subudhi U. Evidence of microplastics release from polythene and paper cups exposed to hot and cold: A case study on the compromised kinetics of catalase. JOURNAL OF HAZARDOUS MATERIALS 2023; 454:131496. [PMID: 37121030 DOI: 10.1016/j.jhazmat.2023.131496] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2023] [Revised: 04/14/2023] [Accepted: 04/24/2023] [Indexed: 05/19/2023]
Abstract
Microplastics (MPs) have become widespread in the modern world posing a hidden threat to the global environment. However, growing accumulation and devastating impact of MPs on human health and the environment have received least attention. In the current investigation, for the first time MPs have been identified which are released from the daily usable materials like polythene bags (PB) and paper cups (PC) in response to hot and cold water exposure at different time intervals. The impact of these MPs has been assessed on the major antioxidant enzyme, bovine liver catalase (BLC). The binding of MPs caused conformational changes in BLC by decreasing the α-helical content, which results in reduction of the enzymatic activity. Kinetics study revealed nearly ∼1.4-fold compromised catalytic efficiency of catalase in response to MPs. Nevertheless, hepatic catalase activity was also significantly decreased in presence of MPs. Further, materials like glass, porcelain, stainless steel, and high-grade plastics are discovered as greener alternatives to PB and PC.
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Affiliation(s)
- R R Samal
- Biochemistry & Biophysics Laboratory, Environment & Sustainability Department, CSIR-Institute of Minerals and Materials Technology, Bhubaneswar 751013, Odisha, India; School of Biological Sciences, Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, Uttar Pradesh, India
| | - H S Navani
- Biochemistry & Biophysics Laboratory, Environment & Sustainability Department, CSIR-Institute of Minerals and Materials Technology, Bhubaneswar 751013, Odisha, India; Department of Microbial Technology, Madurai Kamaraj University, Madurai 625021, Tamil Nadu, India
| | - S Saha
- Materials Chemistry Department, CSIR-Institute of Minerals and Materials Technology, Bhubaneswar 751013, Odisha, India
| | - B Kisan
- Department of Physics, Utkal University, Bhubaneswar 751004, Odisha, India
| | - U Subudhi
- Biochemistry & Biophysics Laboratory, Environment & Sustainability Department, CSIR-Institute of Minerals and Materials Technology, Bhubaneswar 751013, Odisha, India; School of Biological Sciences, Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, Uttar Pradesh, India.
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3
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Duan X, Wang D, Liu Y, Wang L, Wang X, Liu B. The influence of several nutritional supplements on the rational use of cabozantinib. LUMINESCENCE 2023; 38:28-38. [PMID: 36327139 DOI: 10.1002/bio.4404] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2022] [Revised: 10/26/2022] [Accepted: 10/30/2022] [Indexed: 11/06/2022]
Abstract
To promote the rational use of cabozantinib (CBZ), this paper studied the influence of several nutritional supplements on the interaction between CBZ and bovine serum albumin (BSA), an appropriate alternative model for human serum albumin (HSA) that is one of the important transporter proteins in plasma, by fluorescence spectroscopy and UV-vis spectroscopy. The results showed that CBZ could quench the fluorescence of BSA via a dynamic-static quenching process, and the six nutritional supplements did not change the quenching mode of BSA by CBZ. However, all of them could reduce the binding constant of the CBZ-BSA system at 293 K and increase the polarity around tryptophan residues. Among them, nicotinamide and vitamin B12 (VB12 ) had a greater effect on the binding constants of the CBZ-BSA system. In the meantime, the thermodynamic parameters of the CBZ-BSA system were examined, indicating that the interaction of CBZ with BSA was spontaneous and dominated by hydrophobic forces. Further research discovered that the combining of CBZ with BSA was primarily located within Site I of BSA, and the binding distance r was 2.48 nm. Consequently, while taking CBZ, patients should use VB12 and nicotinamide carefully, which may interfere with the transport of drugs.
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Affiliation(s)
- Xinyue Duan
- School of Pharmaceutical Sciences, Liaoning University, Shenyang, China
| | - Dongjing Wang
- Beijing Liling Hengtai Pharmaceutical Co. Ltd., Beijing, China
| | - Yu Liu
- School of Pharmaceutical Sciences, Liaoning University, Shenyang, China
| | - Lei Wang
- School of Pharmaceutical Sciences, Liaoning University, Shenyang, China
| | - Xiao Wang
- Department of Gastroenterology, Central Hospital Affiliated to Shenyang Medical College, Shenyang, China
| | - Bin Liu
- School of Pharmaceutical Sciences, Liaoning University, Shenyang, China
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4
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Hashemizadeh M, Shiri F, Shahraki S, Razmara Z. A multidisciplinary study for investigating the interaction of an iron complex with bovine liver catalase. Appl Organomet Chem 2022. [DOI: 10.1002/aoc.6881] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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5
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Zhou L, Zhou H, Xiao H, Zhang Z, Xiong Z, Tuo X, Guo H. Elucidation on inhibition and binding mechanism of bovine liver catalase by nifedipine: multi-spectroscopic analysis and computer simulation methods. LUMINESCENCE 2022; 37:1547-1556. [PMID: 35816002 DOI: 10.1002/bio.4330] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2022] [Revised: 06/18/2022] [Accepted: 07/07/2022] [Indexed: 11/10/2022]
Abstract
Nifedipine (NDP), a dihydropyridine calcium antagonist, is widely used for the treatment of hypertension and angina pectoris. Catalase is a key antioxidant enzyme that is closely relevant to the level of reactive oxygen species (ROS) in vivo. Here, the research explored the effects of NDP on the conformation and catalytic function of bovine liver catalase (BLC) through enzymatic reaction kinetic techniques, multi-spectroscopic analysis and computer simulation method. Kinetic studies clarified that the NDP debased the activity of BLC by non-competitive inhibition mechanism. Based on the data of trials, it was a static quenching mechanism that functioned in the quenching of intrinsic fluorescence of BLC. The binding constant value was (4.486 ± 0.008) × 104 M-1 (298 K) and BLC had one binding site for NDP. Tyr was prone to be exposed more to a hydrophilic environment in wake of a shift in fluorescence value. The binding reaction of BLC to NDP caused the conformational alteration of BLC, which in turn led to increase of the α-helix and decline of β-sheet contents. Furthermore, several amino acids residues interacted with NDP by means of van der Waals forces, whereas Gln397, Asn368, Gln371, Asn384 and Pro377 formed several Hydrogen Bonds with NDP.
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Affiliation(s)
- Like Zhou
- School of Chemistry and Chemical Engineering, Nanchang University, Nanchang, Jiangxi, China
| | - Hui Zhou
- School of Chemistry and Chemical Engineering, Nanchang University, Nanchang, Jiangxi, China
| | - Huilong Xiao
- School of Pharmacy, Nanchang University, Nanchang, Jiangxi, China
| | - Zihang Zhang
- School of Chemistry and Chemical Engineering, Nanchang University, Nanchang, Jiangxi, China
| | - Ziyun Xiong
- School of Pharmacy, Nanchang University, Nanchang, Jiangxi, China
| | - Xun Tuo
- School of Chemistry and Chemical Engineering, Nanchang University, Nanchang, Jiangxi, China
| | - Hui Guo
- School of Chemistry and Chemical Engineering, Nanchang University, Nanchang, Jiangxi, China
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6
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Rashtbari S, Dehghan G, Sadeghi L, Sareminia L, Iranshahy M, Iranshahi M, Khataee A, Yoon Y. Interaction of bovine serum albumin with ellagic acid and urolithins A and B: Insights from surface plasmon resonance, fluorescence, and molecular docking techniques. Food Chem Toxicol 2022; 162:112913. [PMID: 35276234 DOI: 10.1016/j.fct.2022.112913] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2022] [Revised: 02/22/2022] [Accepted: 03/06/2022] [Indexed: 12/14/2022]
Abstract
Human serum albumin (HSA) shows the sequence homology and structural similarity with bovine serum albumin (BSA). Therefore, here, the interaction of natural phenolic antioxidants, ellagic acid (ELA), and its derivatives-urolithins A (ULA) and B (ULB)-with BSA was investigated. The results of surface plasmon resonance (SPR) indicated a high affinity of ELA, ULA, and ULB to BSA, with KD value < 1 × 10-6 M. The KD values of binding of the studied compounds to BSA increased with temperature, revealing a reduction in affinity with an increase in temperature. Fluorescence data showed that the quenching of BSA by tested compounds occurred via a static quenching. However, the affinity of ELA for BSA was higher than that of ULA and ULB, which may be because of the presence of a large number of hydroxyl groups in its structure. The assessment of the antioxidant activity of BSA and BSA-ELA/ULA/ULB complexes using the DPPH assay indicated that the DPPH scavenging activity of BSA increased after complex formation with ELA/ULA/ULB in the following order: BSA-ELA > BSA-ULA > BSA-ULB > BSA, which was due to their structural differences. The results of the docking analysis were in agreement with the experimental results.
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Affiliation(s)
- Samaneh Rashtbari
- Department of Animal Biology, Faculty of Natural Sciences, University of Tabriz, 51666-16471, Tabriz, Iran
| | - Gholamreza Dehghan
- Department of Animal Biology, Faculty of Natural Sciences, University of Tabriz, 51666-16471, Tabriz, Iran.
| | - Leila Sadeghi
- Department of Animal Biology, Faculty of Natural Sciences, University of Tabriz, 51666-16471, Tabriz, Iran
| | - Leila Sareminia
- Department of Animal Biology, Faculty of Natural Sciences, University of Tabriz, 51666-16471, Tabriz, Iran
| | - Milad Iranshahy
- Department of Pharmacognosy, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, Iran
| | - Mehrdad Iranshahi
- Biotechnology Research Center, Pharmaceutical Technology Institute, Mashhad University of Medical Sciences, Mashhad, Iran
| | - Alireza Khataee
- Research Laboratory of Advanced Water and Wastewater Treatment Processes, Department of Applied Chemistry, Faculty of Chemistry, University of Tabriz, 51666-16471, Tabriz, Iran; Department of Environmental Engineering, Faculty of Engineering, Gebze Technical University, 41400, Gebze, Turkey
| | - Yeojoon Yoon
- Department of Environmental and Energy Engineering, Yonsei University, Wonju, Republic of Korea.
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7
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The protective effect of natural phenolic compound on the functional and structural responses of inhibited catalase by a common azo food dye. Food Chem Toxicol 2021; 160:112801. [PMID: 34974130 DOI: 10.1016/j.fct.2021.112801] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2021] [Revised: 12/24/2021] [Accepted: 12/28/2021] [Indexed: 01/15/2023]
Abstract
In this research retrieval effects of natural yellow (NY) on the performance of carmoisine (CAR) inhibited bovine liver catalase (BLC) was studied using multispectral and theoretical methods. Kinetic studies showed that CAR inhibited BLC through competitive inhibition (IC50 value of 2.24 × 10-6 M) while the addition of NY recover the activity of CAR-BLC up to 82% in comparison with the control enzyme. Circular dichroism data revealed that NY can repair the structural changes of BLC, affected by CAR. Furthermore, an equilibrium dialysis study indicated that NY could reduce the stability of the CAR-catalase complex. The surface plasmon resonance (SPR) data analysis indicated a high affinity of NY to BLC compared to CAR and the binding of NY led to a decrease in the affinity of the enzyme to the inhibitor. On the other hand, fluorescence and molecular docking studies showed that the quenching mechanism of BLC by CAR occurs through a static quenching process, and van der Waals forces and hydrogen bonding play a crucial role in the binding of CAR to BLC. MLSD data demonstrated that NY could increase the binding energy of CAR-BLC complex from -7.72 kJ mol-1 to -5.9 kJ mol-1, leading to complex instability and catalase activity salvage.
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8
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Shahraki S, Samareh Delarami H, Poorsargol M, Sori Nezami Z. Structural and functional changes of catalase through interaction with Erlotinib hydrochloride. Use of Chou's 5-steps rule to study mechanisms. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 260:119940. [PMID: 34038867 DOI: 10.1016/j.saa.2021.119940] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/04/2021] [Revised: 05/06/2021] [Accepted: 05/07/2021] [Indexed: 06/12/2023]
Abstract
Erlotinib hydrochloride (Erlo) is used in the treatment of non-small cell lung cancer, pancreatic cancer and other types of cancer. Interaction of small molecules with bio-macromolecules can lead to changes in the structure and function of them which is one of the possible side effects of the drugs. In this study, the interaction of Erlo with bovine liver catalase (BLC) using spectroscopic and computational methods is presented in detail. The enzymatic function of BLC decreased to 58.7% when the concentration of the Erlo was 0.5 × 10-7 M. Fluorescence results revealed that the combination of BLC with Erlo undergoes static quenching mechanism (Kb = 1.15 × 104 M-1 at 300 K). The interaction process was spontaneous, exothermic and enthalpy-driven and Van der Waals and hydrogen bonds forces played major roles in the this process. UV-Vis, CD, 3D, and synchronous fluorescence measurements indicated the changes in the microenvironment residues and α-helix contents of BLC in the presence of Erlo. Docking and molecular dynamics presented a stable binding configuration and their results were perfectly consistent with the spectroscopic results. Theoretical calculations and experimental analysis help to fully understand of drug interaction with important biological molecules such as enzymes.
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9
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Suryakoppa KS, Kameshwar VH, Appadurai R, Eranna S, Khan MHM. Enantiomeric Separation of Indole-3-Propanamide Derivatives by Using Supercritical Fluid Chromatography on a Polysaccharide-Based Chiral Stationary Phase. J Chromatogr Sci 2021; 60:692-704. [PMID: 34510190 DOI: 10.1093/chromsci/bmab102] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2021] [Revised: 06/28/2021] [Accepted: 08/06/2021] [Indexed: 11/14/2022]
Abstract
Thirteen pairs of I3P enantiomers were screened using nine polysaccharide chiral stationary phases and three different mobile phases. The purification strategy for 13 pairs of I3P enantiomers were designed and optimized considering enantiomeric purity and enrichment of isomers. Out of 13 I3P derivatives which were screened using supercritical fluid chromatography, 10 derivatives displayed excellent baseline separation using a Lux Cellulose-4 column and their resolution from higher to lower order of I3P-11, 13, 4, 12, 2, 1, 9, 3, 7 and 8 derivatives whereas in case of Lux Cellulose-2 column, the moderate separation was achieved as compared to Cellulose-4 in the order I3P-5, 6 and 10 derivatives. Excellent enantiomeric separations and retentions for all 13 I3P enantiomer derivatives were obtained in Cellulose-4 and Cellulose-2 columns in presences of methanol as organic modifier without any additives except in the case of I3P 12 enantiomer. The absolute stereochemical assignment of the purified isomers was determined through an optical rotation study. Among the series of I3P derivatives, I3P-5 showed potent antioxidant activity against catalase with an IC50 value of 13.78 μM. Further molecular docking, MM/GBSA and molecular dynamics studies revealed that the I3P-5 derivatives effectively bind to catalase with a docking score of -5.41 kcal/mol. Which validated chiral docking and indicated great potential for enantiomeric separation in drug discovery and present studies (R)-enantiomer preferentially depicts good binding capacity with catalase.
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Affiliation(s)
- Kaveesha Srinivasa Suryakoppa
- Discovery Chemistry-Analytical Research and Development, Syngene International Ltd, Biocon Park, SEZ, Bommasandra Industrial Estate - Phase-IV, Bommasandra-Jigani Link Road, Bengaluru 560 099, Karnataka, India.,Department of Chemistry, Jawaharlal Nehru National College of Engineering, Visvesvaraya Technological University, Shimoga 577204, Karnataka, India
| | - Vivek Hamse Kameshwar
- School of Natural Science, Adichunchanagiri University-Center for Research and Innovation, BGSIT campus, Adichunchanagiri University, B. G Nagara, 571448 Mandya, Karnataka, India
| | - Ramesh Appadurai
- Discovery Chemistry-Analytical Research and Development, Syngene International Ltd, Biocon Park, SEZ, Bommasandra Industrial Estate - Phase-IV, Bommasandra-Jigani Link Road, Bengaluru 560 099, Karnataka, India
| | - Siddalingamurthy Eranna
- Research and Development, Synus lab LLP, R23, Bommasandra industrial area, Jigani Link Road, Bengaluru 560099, Karnataka, India
| | - M H Moinuddin Khan
- Department of Chemistry, Jawaharlal Nehru National College of Engineering, Visvesvaraya Technological University, Shimoga 577204, Karnataka, India
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Yu X, Zheng X, Yang B, Wang J. Investigating the interaction of CdTe quantum dots with plasma protein transferrin and their interacting consequences at the molecular and cellular level. Int J Biol Macromol 2021; 185:434-440. [PMID: 34197848 DOI: 10.1016/j.ijbiomac.2021.06.164] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2021] [Revised: 06/22/2021] [Accepted: 06/24/2021] [Indexed: 11/25/2022]
Abstract
This study investigated the interacting mechanism of CdTe quantum dots (QDs) with typical plasma protein transferrin (TF) as well as the impact of the formation of QDs-TF complex on the structure of TF and the cytotoxicity of mouse primary kidney cells. Dialysis experiments and cell viability assays revealed that the formation of QDs-TF complex reduced the contents of Cd released from CdTe QDs and thus counteracted the cytotoxicity of CdTe QDs. The assay of isothermal titration calorimetry found that CdTe QDs complexed with TF majorly through hydrophobic interaction. Multi-spectroscopic measurements showed that CdTe QDs caused the loosening of polypeptide chain, the changes of secondary and tertiary structures as well as the attenuated aggregation of TF molecule. Moreover, these structural and conformational changes were attributed to the nano-effects of CdTe QDs rather than the released Cd. This study is of great significance for fully evaluating the biocompatibility of Cd-QDs and comprehensively understanding the mechanism of Cd-QDs toxicity at the molecular and cellular level.
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Affiliation(s)
- Xinping Yu
- School of Environmental and Material Engineering, Yantai University, 30# Qingquan Road, Yantai 264005, PR China
| | - Xiaolin Zheng
- School of Environmental and Material Engineering, Yantai University, 30# Qingquan Road, Yantai 264005, PR China
| | - Bin Yang
- School of Environmental and Material Engineering, Yantai University, 30# Qingquan Road, Yantai 264005, PR China
| | - Jing Wang
- School of Environmental and Material Engineering, Yantai University, 30# Qingquan Road, Yantai 264005, PR China.
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11
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Nowacka-Jechalke N, Nowak R, Lemieszek MK, Rzeski W, Gawlik-Dziki U, Szpakowska N, Kaczyński Z. Promising Potential of Crude Polysaccharides from Sparassis crispa against Colon Cancer: An In Vitro Study. Nutrients 2021; 13:E161. [PMID: 33419097 PMCID: PMC7825430 DOI: 10.3390/nu13010161] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2020] [Revised: 12/29/2020] [Accepted: 01/01/2021] [Indexed: 12/28/2022] Open
Abstract
The aim of the present study was to evaluate in vitro the beneficial potential of crude polysaccharides from S. crispa (CPS) in one of the most common cancer types-colon cancer. The determination of the chemical composition of CPS has revealed that it contains mostly carbohydrates, while proteins or phenolics are present only in trace amounts. 1H NMR and GC-MS methods were used for the structural analysis of CPS. Biological activity including anticancer, anti-inflammatory and antioxidant properties of CPS was investigated. CPS was found to be non-toxic to normal human colon epithelial CCD841 CoN cells. Simultaneously, they destroyed membrane integrity as well as inhibited the proliferation of human colon cancer cell lines: Caco-2, LS180 and HT-29. Antioxidant activity was determined by various methods and revealed the moderate potential of CPS. The enzymatic assays revealed no influence of CPS on xanthine oxidase and the inhibition of catalase activity. Moreover, pro-inflammatory enzymes such as cyclooxygenase-2 or lipooxygenase were inhibited by CPS. Therefore, it may be suggested that S. crispa is a valuable part of the regular human diet, which may contribute to a reduction in the risk of colon cancer, and possess promising activities encouraging further studies regarding its potential use as chemopreventive and therapeutic agent in more invasive stages of this type of cancer.
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Affiliation(s)
- Natalia Nowacka-Jechalke
- Department of Pharmaceutical Botany, Medical University of Lublin, 1 Chodźki Street, 20-093 Lublin, Poland;
| | - Renata Nowak
- Department of Pharmaceutical Botany, Medical University of Lublin, 1 Chodźki Street, 20-093 Lublin, Poland;
| | - Marta Kinga Lemieszek
- Department of Medical Biology, Institute of Rural Health, 2 Jaczewskiego Street, 20-090 Lublin, Poland; (M.K.L.); (W.R.)
| | - Wojciech Rzeski
- Department of Medical Biology, Institute of Rural Health, 2 Jaczewskiego Street, 20-090 Lublin, Poland; (M.K.L.); (W.R.)
- Department of Functional Anatomy and Cytobiology, Maria Curie Skłodowska University, 19 Akademicka Street, 20-033 Lublin, Poland
| | - Urszula Gawlik-Dziki
- Department of Biochemistry and Food Chemistry, University of Life Sciences in Lublin, 8 Skromna Street, 20-704 Lublin, Poland;
| | - Nikola Szpakowska
- Faculty of Chemistry, University of Gdańsk, 63 Wita Stwosza Street, 80-308 Gdańsk, Poland; (N.S.); (Z.K.)
| | - Zbigniew Kaczyński
- Faculty of Chemistry, University of Gdańsk, 63 Wita Stwosza Street, 80-308 Gdańsk, Poland; (N.S.); (Z.K.)
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12
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Razmara Z, Shiri F, Shahraki S. Hydrothermal synthesis of a paramagnetic alkali supermolecule, its effect on catalase inhibitory by spectroscopic and theoretical investigation. Inorganica Chim Acta 2020. [DOI: 10.1016/j.ica.2020.119946] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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13
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Khataee S, Dehghan G, Rashtbari S, Dastmalchi S, Iranshahi M. Noncompetitive Inhibition of Bovine Liver Catalase by Lawsone: Kinetics, Binding Mechanism and in silico Modeling Approaches. IRANIAN JOURNAL OF PHARMACEUTICAL RESEARCH : IJPR 2020; 19:383-397. [PMID: 32922495 PMCID: PMC7462507 DOI: 10.22037/ijpr.2019.111600.13255] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
Lawsone (2-hydroxy-1,4-naphtoquinone; LAW), as a naphthoquinone derivative, is the biologically active component of Henna leaves. In this study, the structural and functional effects of LAW on bovine liver catalase (BLC), has been studied utilizing ultraviolet-visible (UV-vis) absorption, fluorescence, and ATR-FTIR spectroscopic techniques, and molecular docking approach. In-vitro kinetic study showed that by adding gradual concentrations of LAW, catalase activity was significantly decreased through noncompetitive inhibition mechanism. UV-vis and ATR-FTIR spectroscopic results illustrated that additional concentration of LAW lead to significant change in secondary structure of the enzyme.The fluorescence spectroscopic results at different temperatures indicated that LAW quenches the intrinsic fluorescence of BLC by dynamic mechanismand there is just one binding site for LAW on BCL. Changing the micro-environment nearby two aromatic residues (tryptophan (Trp) and tyrosine (Tyr)) were resulted from synchronous fluorescence. The thermodynamic parameters were implied that the hydrophobic bindings have a significant impress in the organization of the LAW-catalase complex. Molecular docking data in agreement with experimental results, confirmed that hydrophobic interactions are dominant. Inhibition of enzyme activity by LAW, showed that along withits helpful effects as ananti-oxidant compounds, the side effects of LAW should not be overlooked.
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Affiliation(s)
- Simin Khataee
- Department of Biology, Faculty of Natural Sciences, University of Tabriz, Tabriz, Iran
| | - Gholamreza Dehghan
- Department of Biology, Faculty of Natural Sciences, University of Tabriz, Tabriz, Iran
| | - Samaneh Rashtbari
- Department of Biology, Faculty of Natural Sciences, University of Tabriz, Tabriz, Iran
| | - Siavash Dastmalchi
- Biotechnology Research Center, School of Pharmacy, Tabriz University of Medical Sciences, Tabriz, Iran.,Faculty of Pharmacy, Near East University, POBOX: 99138, Nicosia, North Cyprus, Mersin 10, Turkey
| | - Mehrdad Iranshahi
- Biotechnology Research Center, Pharmaceutical Technology Institute, Mashhad University of Medical Sciences, Mashhad, Iran
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14
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Lv X, Wang Q, Wang LH, Ren EF, Gong D. The inhibitory effect of citrus flavonoids naringenin and hesperetin against purine nucleoside phosphorylase: Spectroscopic, atomic force microscopy and molecular modeling studies. J Mol Liq 2020. [DOI: 10.1016/j.molliq.2020.112954] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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15
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Shahraki S, Delarami HS, Saeidifar M, Nejat R. Catalytic activity and structural changes of catalase in the presence of Levothyroxine and Isoxsuprine hydrochloride. Int J Biol Macromol 2020; 152:126-136. [DOI: 10.1016/j.ijbiomac.2020.02.064] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2019] [Revised: 02/05/2020] [Accepted: 02/07/2020] [Indexed: 11/24/2022]
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16
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The inefficacy of donepezil on glycated-AChE inhibition: Binding affinity, complex stability and mechanism. Int J Biol Macromol 2020; 160:35-46. [PMID: 32454110 DOI: 10.1016/j.ijbiomac.2020.05.177] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2020] [Revised: 05/17/2020] [Accepted: 05/21/2020] [Indexed: 12/14/2022]
Abstract
Donepezil (DPZ) is a well-known drug for Alzheimer's disease that inhibits acetylcholinesterase activity (AChE). In the present study, the inhibitory effect of DPZ on non-enzymatic glycated-AChE (GLY-AChE) was studied by different experimental and simulation techniques. The initial investigation revealed that glycation process could reduce AChE activity approximately 60% in the pure enzyme and 38% in the extracted crude AChE from neural cells cultured in the presence of high glucose (HG) concentration. It is suggested that glycation of lysine residues on the structure of AChE could change the conformation of the active site (Trp-86 and His-447) in a way that the orientation of acetylcholine interrupted. The further studies indicated that DPZ is although a strong inhibitor for the native enzyme, it is not able to affect the GLY-AChE activity. The KD values of AChE-DPZ and GLY-AChE-DPZ complexes were estimated to be 1.88 × 10-9 and 2.10 × 10-6, respectively. The stability assessment showed that AChE-DPZ complex is more stable than the glycated complex. Our results indicate that, glycation process could impact on the conformation of the residues involved in the DPZ binding cavity on α-helix domain. Therefore, DPZ is not able to bind its specific cavity to induce its inhibitory effects on GLY-AChE.
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A paramagnetic oxalato-bridged binuclear copper(II) complex as an effective catalase inhibitor. Spectroscopic and molecular docking studies. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.127865] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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18
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Liu H, Zhu N, Li M, Huang X, Wu P, Hu Z, Shuai J. Induced fluorescent enhancement of protein-directed synthesized gold nanoclusters for selective and sensitive detection of flame retardants. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 713:136488. [PMID: 31955081 DOI: 10.1016/j.scitotenv.2019.136488] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2019] [Revised: 12/31/2019] [Accepted: 12/31/2019] [Indexed: 06/10/2023]
Abstract
Organophosphate flame retardants (OPFRs), typical toxic and hazardous pollutants, are called for new detection approaches to avoid laborious synthetic procedures and large and expensive instruments. Hence, a novel fluorescent probe was constructed for quantitative detection of OPFRs via heightening the fluorescence of acetylcholinesterase synthesized gold nanoclusters (AChE-AuNCs). The as-prepared AChE-AuNCs exhibited high fluorescence emission at about 398 nm with the average particle size of about 1.60 nm. When the AChE-AuNCs was applied to the proposed fluorescent detection, excellent sensitivity with wide linear range (50-1000 ng L-1) and low detection limit (30 ng L-1) for TClPP with the response time less than 1 h were achieved. The fluorescent probe could be extended to detect other three types of OPFRs (TEP, TPHP, and TBOEP) and the target pollutants could be detectable in the presence of halogenated flame retardants. The mechanism might be mainly contributed by the interaction between OPFRs and AChE-AuNCs restricting internal vibration consumption of their capping ligands. The proposed detection approach could be easily operated and was not involved with other intermediate products. Therefore, AChE-AuNCs could be a promising fluorescent probe for rapid, selective and sensitive detection of OPFRs and even in the practical application.
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Affiliation(s)
- Huangrui Liu
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, Guangdong, PR China
| | - Nengwu Zhu
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, Guangdong, PR China; The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters of Ministry of Education, Guangzhou 510006, Guangdong, PR China; Guangdong Environmental Protection Key Laboratory of Solid Waste Treatment and Recycling, Guangzhou 510006, Guangdong, PR China.
| | - Minting Li
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, Guangdong, PR China
| | - Xixian Huang
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, Guangdong, PR China
| | - Pingxiao Wu
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, Guangdong, PR China; The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters of Ministry of Education, Guangzhou 510006, Guangdong, PR China; Guangdong Environmental Protection Key Laboratory of Solid Waste Treatment and Recycling, Guangzhou 510006, Guangdong, PR China
| | - Zhilin Hu
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, Guangdong, PR China
| | - Jiangtao Shuai
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, Guangdong, PR China
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19
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Maleki S, Dehghan G, Sadeghi L, Rashtbari S, Iranshahi M, Sheibani N. Surface plasmon resonance, fluorescence, and molecular docking studies of bovine serum albumin interactions with natural coumarin diversin. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 230:118063. [PMID: 32000060 DOI: 10.1016/j.saa.2020.118063] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2019] [Revised: 12/15/2019] [Accepted: 01/10/2020] [Indexed: 05/24/2023]
Abstract
In the present study the binding of diversin (DIV), a prenylated coumarin isolated from Ferula diversivittata, to bovine serum albumin (BSA) was investigated using surface plasmon resonance (SPR), spectrofluorimetry, and molecular docking approaches. Following the activation of carboxylic groups, via NHS/EDC, BSA was immobilized on the carboxymethyl dextran (CMD) hydrogel coated Au sensor, and was used for real-time monitoring of the interactions between DIV and BSA. KD value of DIV binding to BSA increased with increasing temperature, confirmed that the affinity between BSA and DIV decreases with rising temperature. In addition, the fluorescence and synchronous fluorescence spectroscopic data revealed that the intrinsic emission intensity of BSA was quenched via a dynamic mechanism. In addition, the micro-region around BSA tyrosine residue was changed upon interaction with DIV. The thermodynamic parameter findings suggested that the hydrophobic interactions were dominant in the binding and formation of the BSA and DIV complex. The molecular docking outputs indicated that there is only one binding site on BSA for DIV, in agreement with experimental data, and DIV bind BSA in subdomain IB.
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Affiliation(s)
- Somaiyeh Maleki
- Department of Biology, Faculty of Natural Sciences, University of Tabriz, Tabriz, Iran
| | - Gholamreza Dehghan
- Department of Biology, Faculty of Natural Sciences, University of Tabriz, Tabriz, Iran.
| | - Leila Sadeghi
- Department of Biology, Faculty of Natural Sciences, University of Tabriz, Tabriz, Iran
| | - Samaneh Rashtbari
- Department of Biology, Faculty of Natural Sciences, University of Tabriz, Tabriz, Iran
| | - Mehrdad Iranshahi
- Biotechnology Research Center, Pharmaceutical Technology Institute, Mashhad University of Medical Sciences, Mashhad, Iran
| | - Nader Sheibani
- Departments of Ophthalmology and Visual Sciences, Cell and Regenerative Biology, and Biomedical Engineering, University of Wisconsin School of Medicine and Public Health, Madison, WI, USA
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21
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Experimental investigation and molecular dynamics simulation of the binding of ellagic acid to bovine liver catalase: Activation study and interaction mechanism. Int J Biol Macromol 2020; 143:850-861. [DOI: 10.1016/j.ijbiomac.2019.09.146] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2019] [Revised: 09/15/2019] [Accepted: 09/19/2019] [Indexed: 01/14/2023]
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22
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Shaghaghi M, Rashtbari S, Vejdani S, Dehghan G, Jouyban A, Yekta R. Exploring the interactions of a Tb(III)–quercetin complex with serum albumins (HSA and BSA): spectroscopic and molecular docking studies. LUMINESCENCE 2019; 35:512-524. [DOI: 10.1002/bio.3757] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2019] [Revised: 11/22/2019] [Accepted: 12/04/2019] [Indexed: 12/28/2022]
Affiliation(s)
- Masoomeh Shaghaghi
- Department of ChemistryPayame Noor University P. O. Box 19395‐3697 Tehran Iran
| | - Samaneh Rashtbari
- Department of Biology, Faculty of Natural SciencesUniversity of Tabriz Tabriz Iran
| | - Samira Vejdani
- Department of ChemistryPayame Noor University P. O. Box 19395‐3697 Tehran Iran
| | - Gholamreza Dehghan
- Department of Biology, Faculty of Natural SciencesUniversity of Tabriz Tabriz Iran
| | - Abolghasem Jouyban
- Pharmaceutical Analysis Research Center and Faculty of PharmacyTabriz University of Medical Sciences Tabriz Iran
| | - Reza Yekta
- Department of Biology, Faculty of Natural SciencesUniversity of Tabriz Tabriz Iran
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23
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Collazos N, García G, Malagón A, Caicedo O, Vargas EF. Binding interactions of a series of sulfonated water-soluble resorcinarenes with bovine liver catalase. Int J Biol Macromol 2019; 139:75-84. [DOI: 10.1016/j.ijbiomac.2019.07.197] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2019] [Revised: 07/24/2019] [Accepted: 07/29/2019] [Indexed: 11/29/2022]
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24
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Simin khataee, Dehghan G, Rashtbari S, Yekta R, Sheibani N. Synergistic inhibition of catalase activity by food colorants sunset yellow and curcumin: An experimental and MLSD simulation approach. Chem Biol Interact 2019; 311:108746. [DOI: 10.1016/j.cbi.2019.108746] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2019] [Revised: 07/06/2019] [Accepted: 07/10/2019] [Indexed: 11/26/2022]
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25
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Shahraki S, Samareh Delarami H, Saeidifar M. Catalase inhibition by two Schiff base derivatives. Kinetics, thermodynamic and molecular docking studies. J Mol Liq 2019. [DOI: 10.1016/j.molliq.2019.111003] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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26
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Yekta R, Dehghan G, Rashtbari S, Sadeghi L, Baradaran B, Sheibani N, Moosavi-Movahedi AA. The impact of water molecules on binding affinity of the anti-diabetic thiazolidinediones for catalase: Kinetic and mechanistic approaches. Arch Biochem Biophys 2019; 664:110-116. [PMID: 30738039 DOI: 10.1016/j.abb.2019.02.002] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2018] [Revised: 02/03/2019] [Accepted: 02/05/2019] [Indexed: 01/29/2023]
Abstract
Water molecules play a vital role in efficient drug binding to its target. Thiazolidinediones (TZDs), a class of anti-diabetic drugs, are widely used for treatment of type 2 diabetes mellitus. In the present study, the possible contribution of water molecules to the binding of TZDs to catalase, a potential target in the liver, was investigated by different experimental and theoretical methods. These studies indicated that TZDs could significantly improve the catalase catalytic function with a significant contribution from water molecules. As a probe for the differential number of released water molecules during the catalase transition from E to E* states, the activity of TZDs-catalase complexes was demonstrated to be mainly dependent on water activity. However, free catalase decomposed the substrate more independently. In addition, the spectrofluorimetry studies showed that the binding of TZDs to catalase needed the release of water molecules from the enzyme's binding pocket. The thermodynamic studies indicated that the binding enthalpy and entropy of TZDs for catalase were decreased with lower water activity. The favorable process contributes to release of water molecules from the binding pocket through the formation of hydrophobic interactions between catalase and TZDs in an enthalpic manner. Molecular docking simulations confirmed that the depletion of water molecules from the binding cavity is essential for effective interactions between TZDs and catalase.
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Affiliation(s)
- Reza Yekta
- Department of Biology, Faculty of Natural Sciences, University of Tabriz, Tabriz, Iran
| | - Gholamreza Dehghan
- Department of Biology, Faculty of Natural Sciences, University of Tabriz, Tabriz, Iran.
| | - Samaneh Rashtbari
- Department of Biology, Faculty of Natural Sciences, University of Tabriz, Tabriz, Iran
| | - Leila Sadeghi
- Department of Biology, Faculty of Natural Sciences, University of Tabriz, Tabriz, Iran
| | - Behzad Baradaran
- Immunology Research Center, Tabriz University of Medical Sciences, Tabriz, Iran
| | - Nader Sheibani
- Departments of Ophthalmology and Visual Sciences, Cell and Regenerative Biology, and Biomedical Engineering, University of Wisconsin School of Medicine and Public Health, Madison, WI, USA
| | - Ali A Moosavi-Movahedi
- Institute of Biochemistry and Biophysics, University of Tehran, Tehran, Iran; Center of Excellence in Biothermodynamics, University of Tehran, Tehran, Iran
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Panahi Y, Yekta R, Dehghan G, Rashtbari S, Baradaran B, Jafari NJ, Moosavi-Movahedi AA. Aspirin in retrieving the inactivated catalase to active form: Displacement of one inhibitor with a protective agent. Int J Biol Macromol 2019; 122:306-311. [DOI: 10.1016/j.ijbiomac.2018.10.183] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2018] [Revised: 09/23/2018] [Accepted: 10/26/2018] [Indexed: 12/17/2022]
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28
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Activation of catalase via co-administration of aspirin and pioglitazone: Experimental and MLSD simulation approaches. Biochimie 2019; 156:100-108. [DOI: 10.1016/j.biochi.2018.10.007] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2018] [Accepted: 10/11/2018] [Indexed: 12/16/2022]
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