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Gogoi B, Gogoi D, Gogoi N, Mahanta S, Buragohain AK. Network pharmacology based high throughput screening for identification of multi targeted anti-diabetic compound from traditionally used plants. J Biomol Struct Dyn 2021; 40:8004-8017. [PMID: 33769188 DOI: 10.1080/07391102.2021.1905554] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Abstract
The incurable Type 2 diabetes mellitus (T2DM) has now been considered a pandemic with only supportive care in existence. Due to the adverse effects of available anti-diabetic drugs, there arises a great urgency to develop new drug molecules. One of the alternatives that can be considered for the treatment of T2DM are natural compounds from traditionally used herbal medicine. The present study undertakes, an integrated multidisciplinary concept of Network Pharmacology to evaluate the efficacy of potent anti-diabetic compound from traditionally used anti-diabetic plants of north east India and followed by DFT analysis. In the course of the study, 22 plant species were selected on the basis of their use in traditional medicine for the treatment of T2DM by various ethnic groups of the north eastern region of India. Initially, a library of 1053 compounds derived from these plants was generated. This was followed by network preparation between compounds and targets based on the docking result. The compounds having the best network property were considered for DFT analysis. We have identified that auraptene, a monoterpene coumarin for its activity in the management of Type 2 diabetes mellitus and deciphered its unexplored probable mechanisms. Molecular dynamics simulation of the ligand-protein complexes also reveals the stable binding of auraptene with the target proteins namely, Protein Kinase C θ, Glucocorticoid receptor, 11-β hydroxysteroid dehydrogenase 1 and Aldose Reductase, all of which form uniform interactions throughout the MD simulation trajectory. Therefore, this finding could provide new insights for the development of a new anti-diabetic drug.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Bhaskarjyoti Gogoi
- Department of Molecular Biology and Biotechnology, Tezpur University, Tezpur, Assam, India.,Department of Biotechnology, Royal Global University, Guwahati, Assam, India
| | - Dhrubajyoti Gogoi
- Centre for Biotechnology and Bioinformatics, Dibrugarh University, Dibrugarh, Assam, India
| | - Neelutpal Gogoi
- Department of Pharmaceutical Sciences, Dibrugarh University, Dibrugarh, Assam, India
| | - Saurov Mahanta
- National Institute of Electronics and Information Technology (NIELIT), Guwahati, Assam, India
| | - Alak K Buragohain
- Department of Molecular Biology and Biotechnology, Tezpur University, Tezpur, Assam, India.,Department of Biotechnology, Royal Global University, Guwahati, Assam, India
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Mahanta S, Chowdhury P, Gogoi N, Goswami N, Borah D, Kumar R, Chetia D, Borah P, Buragohain AK, Gogoi B. Potential anti-viral activity of approved repurposed drug against main protease of SARS-CoV-2: an in silico based approach. J Biomol Struct Dyn 2020; 39:3802-3811. [PMID: 32406317 DOI: 10.1080/07391102.2020.1768902] [Citation(s) in RCA: 45] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
The Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) which was first reported in Wuhan province of China, has become a deadly pandemic causing alarmingly high morbidity and mortality. In the absence of new targeted drugs and vaccines against SARS-CoV-2 at present, the choices for effective treatments are limited. Therefore, considering the exigency of the situation, we focused on identifying the available approved drugs as potential inhibitor against the promising Coronavirus drug target, the Main Protease, using computer-aided methods. We created a library of U. S. Food and Drug Administration approved anti-microbial drugs and virtually screened it against the available crystal structures of Main Protease of the virus. The study revealed that Viomycin showed the highest -CDocker energy after docking at the active site of SARS-CoV-2 Main Protease. It is noteworthy that Viomycin showed higher -CDocker energy as compared to the drugs currently under clinical trial for SARS-CoV-2 treatment viz. Ritonavir and Lopinavir. Additionally, Viomycin formed higher number of H-bonds with SARS-CoV-2 Main Protease than its co-crystallised inhibitor compound N3. Molecular dynamics simulation further showed that Viomycin embedded deeply inside the binding pocket and formed robust binding with SARS-CoV-2 Main Protease. Therefore, we propose that Viomycin may act as a potential inhibitor of the Main Protease of SARS-CoV-2. Further optimisations with the drug may support the much-needed rapid response to mitigate the pandemic.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Saurov Mahanta
- National Institute of Electronics and Information Technology (NIELIT), Guwahati, Guwahati, Assam, India
| | | | - Neelutpal Gogoi
- Department of Pharmaceutical Sciences, Dibrugarh University, Dibrugarh, India
| | - Nabajyoti Goswami
- Bioinformatics Infrastructure Facility, College of Veterinary Science, Assam Agricultural University, Guwahati, India
| | - Debajit Borah
- Department of Biotechnology, Royal Global University, Guwahati, India
| | - Rupesh Kumar
- Department of Biotechnology, Royal Global University, Guwahati, India
| | - Dipak Chetia
- Department of Pharmaceutical Sciences, Dibrugarh University, Dibrugarh, India
| | - Probodh Borah
- Bioinformatics Infrastructure Facility, College of Veterinary Science, Assam Agricultural University, Guwahati, India
| | - Alak K Buragohain
- Department of Biotechnology, Royal Global University, Guwahati, India
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Konwar M, Phukan P, Chaliha AK, Buragohain AK, Damarla K, Gogoi D, Kumar A, Sarma D. An Unexplored Lewis Acidic Catalytic System for Synthesis of Pyrazole and its Biaryls Derivatives with Antimicrobial Activities through Cycloaddition‐Iodination‐Suzuki Reaction. ChemistrySelect 2019. [DOI: 10.1002/slct.201902266] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Affiliation(s)
- Manashjyoti Konwar
- Department of ChemistryDibrugarh University Dibrugarh- 786004, Assam India
| | - Parmita Phukan
- Department of ChemistryDibrugarh University Dibrugarh- 786004, Assam India
| | - Amrita K. Chaliha
- Centre for Biotechnology and BioinformaticsDibrugarh University Dibrugarh- 786004, Assam India
| | - Alak K. Buragohain
- Centre for Biotechnology and BioinformaticsDibrugarh University Dibrugarh- 786004, Assam India
| | - Krishnaiah Damarla
- Academy of Scientific and Innovative Research (AcSIR)Central Salt and Marine Chemicals Research Institute G. B. Marg Bhavnagar 364002 Gujarat India
| | - Dipshikha Gogoi
- DBT-Bioinformatics Infrastructure Facility, Centre for Biotechnology and BioinformaticsDibrugarh University Dibrugarh- 786004, Assam India
| | - Arvind Kumar
- Academy of Scientific and Innovative Research (AcSIR)Central Salt and Marine Chemicals Research Institute G. B. Marg Bhavnagar 364002 Gujarat India
| | - Diganta Sarma
- Department of ChemistryDibrugarh University Dibrugarh- 786004, Assam India
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Banerjee D, Sinha A, Saikia S, Gogoi B, Rathore AK, Das AS, Pal D, Buragohain AK, Dasgupta S. Inflammation-induced mTORC2-Akt-mTORC1 signaling promotes macrophage foam cell formation. Biochimie 2018; 151:139-149. [DOI: 10.1016/j.biochi.2018.06.001] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2017] [Accepted: 06/04/2018] [Indexed: 01/10/2023]
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Aziz Ali A, Gogoi D, Chaliha AK, Buragohain AK, Trivedi P, Saikia PJ, Gehlot PS, Kumar A, Chaturvedi V, Sarma D. Synthesis and biological evaluation of novel 1,2,3-triazole derivatives as anti-tubercular agents. Bioorg Med Chem Lett 2017; 27:3698-3703. [PMID: 28712709 DOI: 10.1016/j.bmcl.2017.07.008] [Citation(s) in RCA: 56] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2017] [Revised: 06/09/2017] [Accepted: 07/03/2017] [Indexed: 01/04/2023]
Abstract
A library of seventeen novel 1,2,3-triazole derivatives were efficiently synthesized in excellent yields by the popular 'click chemistry' approach and evaluated in vitro for their anti-tubercular activity against Mycobacterium tuberculosis H37Ra (ATCC 25177 strain). Among the series, six compounds exhibited significant activity with minimum inhibitory concentration (MIC) values ranging from 3.12 to 0.78μg/mL and along with no significant cytotoxicity against MBMDMQs (mouse bone marrow derived macrophages). Molecular docking of the target compounds into the active site of DprE1 (Decaprenylphosphoryl-β-d-ribose-2'-epimerase) enzyme revealed noteworthy information on the plausible binding interactions.
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Affiliation(s)
- Abdul Aziz Ali
- Department of Chemistry, Dibrugarh University, Dibrugarh 786004, Assam, India
| | - Dhrubajyoti Gogoi
- DBT-Bioinformatics Infrastructure Facility, Centre for Biotechnology and Bioinformatics, Dibrugarh University, Dibrugarh 786004, Assam, India
| | - Amrita K Chaliha
- DBT-Bioinformatics Infrastructure Facility, Centre for Biotechnology and Bioinformatics, Dibrugarh University, Dibrugarh 786004, Assam, India
| | - Alak K Buragohain
- DBT-Bioinformatics Infrastructure Facility, Centre for Biotechnology and Bioinformatics, Dibrugarh University, Dibrugarh 786004, Assam, India
| | - Priyanka Trivedi
- Biochemistry Division, Central Drug Research Institute, CSIR, Lucknow 226001, India
| | - Prakash J Saikia
- Analytical Chemistry Division, CSIR-North East Institute of Science & Technology, Jorhat 785006, Assam, India
| | - Praveen S Gehlot
- AcSIR, Salt and Marine Chemicals Division, CSIR-Central Salt and Marine Chemicals Research Institute, Bhavnagar 364002, India
| | - Arvind Kumar
- AcSIR, Salt and Marine Chemicals Division, CSIR-Central Salt and Marine Chemicals Research Institute, Bhavnagar 364002, India
| | - Vinita Chaturvedi
- Biochemistry Division, Central Drug Research Institute, CSIR, Lucknow 226001, India.
| | - Diganta Sarma
- Department of Chemistry, Dibrugarh University, Dibrugarh 786004, Assam, India.
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Deka C, Aidew L, Devi N, Buragohain AK, Kakati DK. Synthesis of curcumin-loaded chitosan phosphate nanoparticle and study of its cytotoxicity and antimicrobial activity. J Biomater Sci Polym Ed 2016; 27:1659-73. [PMID: 27564239 DOI: 10.1080/09205063.2016.1226051] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Abstract
Curcumin has acquired an important position in the treatment of various diseases. But its use, as a chemotherapeutic agent, is limited due to its low water solubility, poor bioavailability, and its sensitive nature at the physiological pH. To overcome this, curcumin was loaded into chitosan phosphate nanoparticles (CPNs). The loading efficiency was found to be 84%. DLS studies revealed the average particle size of CPNs and curcumin-loaded CPNs as 53 and 91 nm, respectively, and TEM results supplemented these values. A sustained release pattern was noticed and the amount of curcumin released in acidic pH was higher than at physiological pH. The curcumin nanoformulation exhibited proficient activity against both Gram-positive and Gram-negative bacteria as well as fungus. Cytocompatibility of the nanoformulations against peripheral blood mononuclear cells (PBMCs) and murine monocyte-macrophage cell line was confirmed by incubating with PBMCs and murine monocyte-macrophage cell line.
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Affiliation(s)
- C Deka
- a Department of Chemistry , Gauhati University , Guwahati , India
| | - L Aidew
- b Department of Molecular Biology and Biotechnology , Tezpur University , Tezpur , India
| | - N Devi
- a Department of Chemistry , Gauhati University , Guwahati , India
| | - A K Buragohain
- b Department of Molecular Biology and Biotechnology , Tezpur University , Tezpur , India
| | - D K Kakati
- a Department of Chemistry , Gauhati University , Guwahati , India
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Barua S, Chattopadhyay P, Aidew L, Buragohain AK, Karak N. Infection-resistant hyperbranched epoxy nanocomposite as a scaffold for skin tissue regeneration. POLYM INT 2014. [DOI: 10.1002/pi.4790] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Shaswat Barua
- Advanced Polymer and Nanomaterial Laboratory, Department of Chemical Sciences; Tezpur University; Napaam, Tezpur- 784028 Assam India
| | | | - Lipika Aidew
- Department of Molecular Biology and Biotechnology; Tezpur University; Napaam- 784028 Assam India
| | - Alak K. Buragohain
- Department of Molecular Biology and Biotechnology; Tezpur University; Napaam- 784028 Assam India
| | - Niranjan Karak
- Advanced Polymer and Nanomaterial Laboratory, Department of Chemical Sciences; Tezpur University; Napaam, Tezpur- 784028 Assam India
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Barua S, Dutta N, Karmakar S, Chattopadhyay P, Aidew L, Buragohain AK, Karak N. Biocompatible high performance hyperbranched epoxy/clay nanocomposite as an implantable material. Biomed Mater 2014; 9:025006. [DOI: 10.1088/1748-6041/9/2/025006] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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Barua S, Thakur S, Aidew L, Buragohain AK, Chattopadhyay P, Karak N. One step preparation of a biocompatible, antimicrobial reduced graphene oxide–silver nanohybrid as a topical antimicrobial agent. RSC Adv 2014. [DOI: 10.1039/c3ra46835f] [Citation(s) in RCA: 56] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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Pramanik S, Konwarh R, Barua N, Buragohain AK, Karak N. Bio-based hyperbranched poly(ester amide)–MWCNT nanocomposites: multimodalities at the biointerface. Biomater Sci 2014; 2:192-202. [PMID: 32481879 DOI: 10.1039/c3bm60170f] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/03/2023]
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Barua S, Das G, Aidew L, Buragohain AK, Karak N. Copper–copper oxide coated nanofibrillar cellulose: a promising biomaterial. RSC Adv 2013. [DOI: 10.1039/c3ra42209g] [Citation(s) in RCA: 51] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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Barua N, Sarmah P, Hussain I, Deka RC, Buragohain AK. DFT-based QSAR Models to Predict the Antimycobacterial Activity of Chalcones. Chem Biol Drug Des 2012; 79:553-9. [DOI: 10.1111/j.1747-0285.2011.01289.x] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Goswami B, Choudhury A, Buragohain AK. Luminescence properties of a nanoporous freshwater diatom. LUMINESCENCE 2011; 27:16-9. [PMID: 21618682 DOI: 10.1002/bio.1315] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2010] [Revised: 04/08/2011] [Accepted: 04/08/2011] [Indexed: 11/09/2022]
Abstract
Freshwater diatom frustules show special optical properties. In this paper we observed luminescence properties of the freshwater diatom Cyclotella meneghiniana. To confirm the morphological properties we present scanning electron microscopy (SEM) images. X-ray diffraction (XRD) studies were carried out to visualize the structural properties of the frustules, confirming that silica present in diatom frustules crystallizes in an α-quartz structure. Study of the optical properties of the silica frustules of diatoms using ultra-violet-visible (UV-vis) spectroscopy and photoluminescence spectroscopy confirmed that the diatom C. meneghiniana shows luminescence in the blue region of the electromagnetic spectrum when irradiated with UV light. This property of diatoms can be exploited to obtain many applications in day-to-day life. Also, using time-resolved photoluminescence spectroscopy (TRPL) it was confirmed that this species of diatom shows bi-exponential decay.
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Affiliation(s)
- Bondita Goswami
- Department of Physics, Tezpur University, Tezpur, 784028, Assam, India
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Deka H, Karak N, Kalita RD, Buragohain AK. Bio-based thermostable, biodegradable and biocompatible hyperbranched polyurethane/Ag nanocomposites with antimicrobial activity. Polym Degrad Stab 2010. [DOI: 10.1016/j.polymdegradstab.2010.06.017] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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Abstract
Head-to-tail dimeric clones of both DNA A and DNA B of potato yellow mosaic geminivirus (PYMV) were constructed. These constructs were infectious when inoculated onto Nicotiana benthamiana plants either as DNA or by agroinoculation and were also infectious for tomato plants by agroinoculation. The dimers were not infectious for potato plants following inoculation by either method. Symptom induction required both DNA A and DNA B but agroinoculation with DNA A alone resulted in virus spread in 30% of the inoculated N. benthamiana plants. Leaf disc explants of N. benthamiana, tomato and potato could all be infected by agroinoculation indicating that the method of delivery of the DNA to intact potato plants was unsuitable for successful inoculation rather than an inherent inability of the virus to replicate/spread in potato per se. Neither whole plants nor leaf discs of sugar beet supported the replication of PYMV DNA.
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Affiliation(s)
- A K Buragohain
- Biology Department, Imperial College of Science, Technology and Medicine, London, U.K
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