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Dushanan R, Weerasinghe S, Dissanayake DP, Senthilinithy R. Implication of Ab Initio, QM/MM, and molecular dynamics calculations on the prediction of the therapeutic potential of some selected HDAC inhibitors. MOLECULAR SIMULATION 2022. [DOI: 10.1080/08927022.2022.2097672] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Affiliation(s)
- Ramachandren Dushanan
- Department of Chemistry, Faculty of Natural Sciences, The Open University of Sri Lanka, Nugegoda, Sri Lanka
| | - Samantha Weerasinghe
- Department of Chemistry, Faculty of Science, University of Colombo, Colombo, Sri Lanka
| | | | - Rajendram Senthilinithy
- Department of Chemistry, Faculty of Natural Sciences, The Open University of Sri Lanka, Nugegoda, Sri Lanka
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Thomas RK, Sukumaran S, Sudarsanakumar C. Photobehaviour and in vitro binding strategy of natural drug, chlorogenic acid with DNA: A case of groove binding. J Mol Struct 2019. [DOI: 10.1016/j.molstruc.2018.10.019] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
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Dileep KV, Remya C, Tintu I, Mandal PK, Karthe P, Haridas M, Sadasivan C. Crystal structure of phospholipase A 2 in complex with 1-naphthaleneacetic acid. IUBMB Life 2018; 70:995-1001. [PMID: 30120882 DOI: 10.1002/iub.1924] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2018] [Revised: 05/12/2018] [Accepted: 06/04/2018] [Indexed: 11/06/2022]
Abstract
Phospholipase A2 (PLA2 ) is one of the rate limiting enzymes involved in the production of arachidonic acid, a potent inflammatory mediator. PLA2 is widely distributed all over the animal kingdom. It is also seen in inflammatory exudation and venoms of different organisms. The studies demonstrated that PLA2 inhibitors have broad spectrum activities that they can either be used against inflammation or envenomation. In this study, the inhibitory activity of 1-napthaleneacetic acid (NAA) against porcine pancreatic PLA2 has been explained through isothermal titration calorimetry and enzyme kinetics studies. The atomic level of interactions of NAA with PLA2 was also studied using X-ray crystallography. Apart from these findings, the theoretical binding affinities and mode of interactions of two naphthalene-based NSAIDs such as naproxen (NAP) and nabumetone (NAB) were studied through molecular modeling. The studies proved that the selected ligands are binding at the doorway of the active site cleft and hindering the substrate entry to the active site. The study brings out a potential scaffold for the designing of broad spectrum PLA2 inhibitors which can be used for inflammation or envenomation. © 2018 IUBMB Life, 70(10):995-1001, 2018.
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Affiliation(s)
- Kalarickal V Dileep
- Department of Biotechnology and Microbiology, Kannur University, Kannur, Kerala, India
| | - Chandran Remya
- Department of Biotechnology and Microbiology, Kannur University, Kannur, Kerala, India
| | - Ignatius Tintu
- Department of Biotechnology and Microbiology, Kannur University, Kannur, Kerala, India
| | - Pradeep K Mandal
- Centre of Advanced Study in Crystallography and Biophysics, University of Madras, Chennai, Tamil Nadu, India
| | - Ponnuraj Karthe
- Centre of Advanced Study in Crystallography and Biophysics, University of Madras, Chennai, Tamil Nadu, India
| | - Madathilkovilakathu Haridas
- Department of Biotechnology and Microbiology, Kannur University, Kannur, Kerala, India.,Inter University Centre for Bioscience, Kannur University, Kannur, Kerala, India
| | - Chittalakkottu Sadasivan
- Department of Biotechnology and Microbiology, Kannur University, Kannur, Kerala, India.,Inter University Centre for Bioscience, Kannur University, Kannur, Kerala, India
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