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Abu-Aisheh MN, Al-Aboudi A, Mustafa MS, El-Abadelah MM, Ali SY, Ul-Haq Z, Mubarak MS. Coumarin derivatives as acetyl- and butyrylcholinestrase inhibitors: An in vitro, molecular docking, and molecular dynamics simulations study. Heliyon 2019; 5:e01552. [PMID: 31183424 PMCID: PMC6488543 DOI: 10.1016/j.heliyon.2019.e01552] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2018] [Revised: 03/05/2019] [Accepted: 04/17/2019] [Indexed: 11/30/2022] Open
Abstract
Alzheimer's disease is an irreversible and progressive brain disease that can cause problems with memory and thinking skills. It is characterized by loss of cognitive ability and severe behavioral abnormalities, and could lead to death. Cholinesterases (ChEs) play a crucial role in the control of cholinergic transmission, and subsequently, the acetylcholine level in the brain is upgraded by inhibition of ChEs. Coumarins have been shown to display potential cholinesterase inhibitory action, where the aromatic moiety has led to the design of new candidates that could inhibit Aβ aggregation. Accordingly, the present work is an in vitro activity, along with docking and molecular dynamics (MD) simulation studies of synthesized coumarin derivatives, to explore the plausible binding mode of these compounds inside the cholinesterase enzymes. For this purpose, a series of previously prepared N1-(coumarin-7-yl) derivatives were screened in vitro for acetylcholinesterase (AChE) and butyrylcholinesterase (BChE) inhibitory activities. The assayed compounds exhibited moderate inhibitory activity against AChE, with IC50 values ranging from 42.5 ± 2.68 to 442 ± 3.30 μM. On the other hand, the studied compounds showed remarkable activity against BChE with IC50 values ranging from 2.0 ± 1.4 nM to 442 ± 3.30 μM. In order to better understand the ligand binding site interaction of compounds and the stability of protein-ligand complexes, a molecular docking with molecular dynamics simulation of 5000 ps in an explicit solvent system was carried out for both cholinesterases. We concluded that the tested coumarin derivatives are potential candidates as leads for potent and efficacious ChEs inhibitors.
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Affiliation(s)
| | - Amal Al-Aboudi
- Department of Chemistry, The University of Jordan, Amman 11942, Jordan
| | | | | | - Saman Yousuf Ali
- Dr. Panjwani Center for Molecular Medicine & Drug Research, International Center for Chemical and Biological Sciences, University of Karachi, Karachi 75270, Pakistan
| | - Zaheer Ul-Haq
- Dr. Panjwani Center for Molecular Medicine & Drug Research, International Center for Chemical and Biological Sciences, University of Karachi, Karachi 75270, Pakistan
| | - Mohammad S. Mubarak
- Department of Chemistry, The University of Jordan, Amman 11942, Jordan
- Corresponding author.
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2
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Elpidina EN, Semashko TA, Smirnova YA, Dvoryakova EA, Dunaevsky YE, Belozersky MA, Serebryakova MV, Klyachko EV, Abd El-Latif AO, Oppert B, Filippova IY. Direct detection of cysteine peptidases for MALDI-TOF MS analysis using fluorogenic substrates. Anal Biochem 2018; 567:45-50. [PMID: 30528915 DOI: 10.1016/j.ab.2018.12.001] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2018] [Revised: 10/19/2018] [Accepted: 12/03/2018] [Indexed: 01/12/2023]
Abstract
A method is described for the direct detection of unstable cysteine peptidase activity in polyacrylamide gels after native electrophoresis using new selective fluorogenic peptide substrates, pyroglutamyl-phenylalanyl-alanyl-4-amino-7-methylcoumaride (Glp-Phe-Ala-AMC) and pyroglutamyl-phenylalanyl-alanyl-4-amino-7-trifluoromethyl-coumaride (Glp-Phe-Ala-AFC). The detection limit of the model enzyme papain was 17 pmol (0.29 μg) for Glp-Phe-Ala-AMC and 43 pmol (0.74 μg) for Glp-Phe-Ala-AFC, with increased sensitivity and selectivity compared to the traditional method of protein determination with Coomassie G-250 staining or detection of activity using chromogenic substrates. Using this method, we easily identified the target digestive peptidases of Tenebrio molitor larvae by matrix assisted laser desorption/ionization time of flight mass spectrometry (MALDI-TOF MS) analysis. The method offers simplicity, high sensitivity, and selectivity compared to traditional methods for improved identification of unstable cysteine peptidases in multi-component biological samples.
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Affiliation(s)
- Elena N Elpidina
- A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, 119991, Russia
| | - Tatiana A Semashko
- Department of Chemistry, Moscow State University, Moscow, 119991, Russia
| | - Yulia A Smirnova
- A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, 119991, Russia
| | - Elena A Dvoryakova
- A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, 119991, Russia
| | - Yakov E Dunaevsky
- A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, 119991, Russia
| | - Mikhail A Belozersky
- A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, 119991, Russia
| | - Marina V Serebryakova
- A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, 119991, Russia
| | - Elena V Klyachko
- Bach Institute of Biochemistry, Research Center of Biotechnology of the Russian Academy of Sciences, Moscow, 119071, Russia
| | - Ashraf O Abd El-Latif
- Department of Plant Protection, Faculty of Agriculture, Sohag University, Sohag, Egypt
| | - Brenda Oppert
- USDA Agricultural Research Service, Center for Grain and Animal Health Research, Manhattan, KS, 66502, USA.
| | - Irina Y Filippova
- Department of Chemistry, Moscow State University, Moscow, 119991, Russia
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Gamero-Sandemetrio E, Gómez-Pastor R, Matallana E. Zymography Methods to Simultaneously Analyze Superoxide Dismutase and Catalase Activities: Novel Application for Yeast Species Identification. Methods Mol Biol 2017; 1626:189-198. [PMID: 28608211 DOI: 10.1007/978-1-4939-7111-4_17] [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: 12/20/2022]
Abstract
We provide an optimized protocol for a double staining technique to analyze superoxide dismutase enzymatic isoforms Cu-Zn SOD (Sod1) and Mn-SOD (Sod2) and catalase in the same polyacrylamide gel. The use of NaCN, which specifically inhibits yeast Sod1 isoform, allows the analysis of Sod2 isoform while the use of H2O2 allows the analysis of catalase. The identification of a different zymography profiling of SOD and catalase isoforms in different yeast species allowed us to propose this technique as a novel yeast identification and classification strategy.
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Affiliation(s)
- Esther Gamero-Sandemetrio
- Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos, CSIC, Avda Agustín Escardino, 7, Paterna, 46980, Valencia, Spain
| | - Rocío Gómez-Pastor
- Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos, CSIC, Avda Agustín Escardino, 7, Paterna, 46980, Valencia, Spain.,Departament de Bioquímica i Biologia Molecular, Universitat de València, Avda Dr Moliner, 50, Burjasot, 46100, Valencia, Spain
| | - Emilia Matallana
- Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos, CSIC, Avda Agustín Escardino, 7, Paterna, 46980, Valencia, Spain. .,Departament de Bioquímica i Biologia Molecular, Universitat de València, Avda Dr Moliner, 50, Burjasot, 46100, Valencia, Spain.
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Budič M, Cigić B, Šoštarič M, Sabotič J, Meglič V, Kos J, Kidrič M. The response of aminopeptidases of Phaseolus vulgaris to drought depends on the developmental stage of the leaves. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2016; 109:326-336. [PMID: 27783982 DOI: 10.1016/j.plaphy.2016.10.007] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2016] [Revised: 10/09/2016] [Accepted: 10/09/2016] [Indexed: 06/06/2023]
Abstract
Aminopeptidases, together with other proteases, execute and regulate the total and specifically limited protein breakdown involved in plant physiology, raising the possibility of their involvement in response to drought. We have identified, in leaves of Phaseolus vulgaris L., five aminopeptidases (E.C.3.4.11) whose levels of activity changed when three week old plants were subjected to drought. First, second and third trifoliate leaves were investigated separately. The aminopeptidases were first identified then isolated using ion exchange chromatography of leaf extracts. Three, named PvAP1, PvAP2 and PvAP4, are metallo aminopeptidases with broad substrate specificity, active against substrates conjugated to alanine and lysine. Two others, PvAP3 and PvAP5, are apparently serine aminopeptidases, the former active against substrates conjugated to phenylalanine and leucine, and the latter characterised by narrow specificity against substrates conjugated to phenylalanine. Their apparent molecular weights range from ∼37 kDa to ∼80 kDa. Levels of activity of individual aminopeptidases in both watered and drought stressed plants are shown to depend on the age of leaves. In watered plants they were generally highest in young, and very low in older, trifoliate leaves, the latter with the exception of PvAP5. Drought initiated an almost general increase of their activities, although to different extents, with the exception of PvAP4 and PvAP5 in young trifoliate leaves. Thus, in such studies it is necessary to investigate the effects of drought separately in leaves of different ages in order to elucidate the different complex and probably specific roles of aminopeptidases in the response of common bean to drought.
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Affiliation(s)
- Maruška Budič
- Department of Biotechnology, Jožef Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
| | - Blaž Cigić
- Chair of Biochemistry and Food Chemistry, Department of Food Science and Technology, Biotechnical Faculty, University of Ljubljana, SI-1000 Ljubljana, Slovenia
| | - Maja Šoštarič
- Department of Biotechnology, Jožef Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
| | - Jerica Sabotič
- Department of Biotechnology, Jožef Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
| | - Vladimir Meglič
- Crop and Seed Science Department, Agricultural Institute of Slovenia, Hacquetova ulica 17, SI-1000 Ljubljana, Slovenia
| | - Janko Kos
- Department of Biotechnology, Jožef Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia; Faculty of Pharmacy, University of Ljubljana, Aškerčeva cesta 7, SI-1000 Ljubljana, Slovenia
| | - Marjetka Kidrič
- Department of Biotechnology, Jožef Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia.
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Kidrič M, Sabotič J, Stevanović B. Desiccation tolerance of the resurrection plant Ramonda serbica is associated with dehydration-dependent changes in levels of proteolytic activities. JOURNAL OF PLANT PHYSIOLOGY 2014; 171:998-1002. [PMID: 24974326 DOI: 10.1016/j.jplph.2014.03.011] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2013] [Revised: 03/07/2014] [Accepted: 03/08/2014] [Indexed: 06/03/2023]
Abstract
The unique response of desiccation-tolerant, or resurrection plants, to extreme drought is accompanied by major changes in the protein pool, raising the possibility of the involvement of proteases. We detected and characterized proteases present in their active state in leaf extracts of desiccated Ramonda serbica Panč., a resurrection plant from the Balkan Peninsula. Plants desiccated under laboratory conditions and maintained in anhydrobiosis for 4 and 14 months revived upon rehydration. Protease activities were determined spectrophotometrically in solution and by zymography on gels. Several endo- and aminopeptidases were detected and characterized by their pH profiles. Their enzyme class was determined using specific inhibitors. Those with higher activities were a serine endopeptidase active against Bz-Arg-pNA with a pH optimum around 9, and aminopeptidases optimally active at pHs from 7 to 9 against Leu-pNA, Met-pNA, Phe-pNA, Pro-pNA and Ala-pNA. The levels of their activities in leaf extracts from desiccated plants were significantly higher than those from rehydrated plants and from regularly watered plants, implying their involvement in the recovery of vegetative tissues from desiccation.
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Affiliation(s)
- Marjetka Kidrič
- Department of Biotechnology, Jožef Stefan Institute, Jamova cesta 39, 1000 Ljubljana, Slovenia.
| | - Jerica Sabotič
- Department of Biotechnology, Jožef Stefan Institute, Jamova cesta 39, 1000 Ljubljana, Slovenia
| | - Branka Stevanović
- Institute of Botany and Botanical Garden, Department of Plant Ecology and Phytogeography, Faculty of Biology, University of Belgrade, Takovska 43, 11000 Belgrade, Serbia
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