In silico Docking Studies and Potential Lead Identification against JNK3 for Alzheimer’s Disease

Singh, Nishtha Manish; Upadhyay, S.N.; Jaiswar, Ankur; Mishra, Nidhi

doi:10.5530/ijpi.2019.4.41

Cited by 3 publications

(2 citation statements)

References 10 publications

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“…Optimasi kodon melalui metode in silico merupakan cara untuk meningkatkan ekspresi protein heterologous tanpa mengubah urutan asam amino dari protein yang dikodekan. Metode analisis ini berbasis komputasi yang dikombinasikan dengan algoritma matematika, kimia dan biologi untuk memprediksi dan menganalisis struktur dan aktivitas suatu protein (Singh et al, 2016). Penerapan teknologi ini lebih efisien dan efektif dibanding dengan isolasi gen secara langsung karena selain dapat mencegah penularan penyakit (Hughes et al, 2011) juga menghemat waktu dan biaya yang digunakan dalam penelitian (Yaraguppi et al, 2012).…”

Section: Optimasi Gen Penyandi Lon-like Proteaseunclassified

Expression of Lon-like Protease Gene from Lactobacillus plantarum IIA-1A5 in Escherichia coli BL21(DE3)

et al. 2019

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Proteases are one of most important and abundant enzymes produced by the biotechnology industry, for scientific, physiological and industrial application and dominates of the whole enzyme market. Lactobacillus plantarum IIA-1A5 is an Indonesian lactic acid bacteria (LAB) isolated from beef Peranakan Ongole cattle. Preliminary analysis on its whole genome sequence indicated that this strain harbours some genes involved in protein degradation and might be promising to be further applied. This study aims to optimize the gene sequence of a lon-like protease of L. plantarum IIA-1A5 for heterologous expression system. The Lon-like gene expression system is made using genes that have been optimized first in silico. pET-28a(+), E. coli BL21(DE3), Nde1 and BamH1 were used in this study as a expression vector, a host and retriction enzyme, respectively. Molecular weight was validated using SDS-PAGE and expasy.org software. The results showed that optimization increased codon adaptation index value (CAI) and GC content to 0.97 and 56.57%, respectively, which were suitable for the E. coli expression system. The Lon-like IIA gene was successfully expressed in the cell cytoplasm by induction of 1 mM Isopropyl β-D-1-thiogalactopyranoside (IPTG) at 37 °C. As many as 88% of Lon-like IIA codons were distributed in the 91-100 quality group. Lon-like IIA was successfully expressed in a host cell induced with 1 mM IPTG at 37oC . IPTG induction was performed at the 3rd hour of incubation with OD600 0.59. In addition, Lon-like IIA molecular weight was detected approximately 43 kDa.

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Section: Optimasi Gen Penyandi Lon-like Proteaseunclassified

Expression of Lon-like Protease Gene from Lactobacillus plantarum IIA-1A5 in Escherichia coli BL21(DE3)

et al. 2019

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“…TMPred relies on a database of trans-membrane proteins called TMbase 20 . TMbase which is derived from uniprot, contains additional information on each sequence regarding the number of trans-membrane domains they possess, the location of these domains, and the nature of the flanking sequences.…”

Section: Trans-membrane Predictionmentioning

confidence: 99%

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2017

IJPSR

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Diabetic retinopathy (DR) is a micro vascular disorder affecting the retina of the eye. Many genes have been identified for its pathogenesis. Endoglin (ENG) is one of the candidate gene involved in DR. Several literature studies helped us understand that the in vitro and in vivo studies of these candidate genes had demonstrated the role of a new gene called endoglin (ENG) capable of inhibiting angiogenesis. In this present study we characterized the physicochemical and functional properties of endoglin gene using bioinformatics tools as this had not been studied previously. The three dimensional structure of endoglin was also computed using homology modelling and the reliability of the model was assessed by predicting its secondary structure along with validation. Additionally, using experimental evidence score, phylogenetic analysis and protein-protein network was framed between endoglin and its interacting neighbouring partners. These results are innovative and relevant enough to start prospective studies that will allow us to establish the relative strength of the prediction of diabetic retinopathy according to the endoglin levels presented by the patient. INTRODUCTION: Diabetic retinopathy, a leading cause of blindness in the developing countries is a prototypical micro-vascular disorder associated with micro-aneurysms, intraretinal hemorrhages, capillary non-perfusion, intraretinal micro-vascular abnormalities and neovascularization. Global population based data indicate that it is the fifth most common cause of blindness in the world 1. The duration of diabetes and glycemic control is the two most important factors in the development of retinopathy 2 .

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In silico Strategy: A Promising Implement in the Development of Multitarget Drugs against Neurodegenerative Diseases

Banjare,

Wamanrao Matore,

Murmu

et al. 2023

CTMC

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Multi-target drug development (MTDD) is the demand of the recent era, especially in the case of multi-factorial conditions such as cancer, depression, neurodegenerative diseases (NDs), etc. The MTDD approaches have many advantages; avoidance of drug-drug interactions, predictable pharmacokinetic profile, and less drug resistance. The wet lab practice in MTDD is very challenging for the researchers, and the chances of late-stage failure are obvious. Identification of an appropriate target (Target fishing) is another challenging task in the development of multi-target drugs. The in silico tools will be one of the promising tools in the MTDD for the NDs. Therefore the outlook of the review comprises a short description of NDs, target associated with different NDs, in silico studies so far done for MTDD for various NDs. The main thrust of this review is to explore the present and future aspects of in silico tools used in MTDD for different NDs in combating the challenge of drug development and the application of various in silico tools to solve the problem of target fishing.

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In silico Docking Studies and Potential Lead Identification against JNK3 for Alzheimer’s Disease

Cited by 3 publications

References 10 publications

Expression of Lon-like Protease Gene from Lactobacillus plantarum IIA-1A5 in Escherichia coli BL21(DE3)

Expression of Lon-like Protease Gene from Lactobacillus plantarum IIA-1A5 in Escherichia coli BL21(DE3)

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In silico Strategy: A Promising Implement in the Development of Multitarget Drugs against Neurodegenerative Diseases

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