In silico analysis and 3d structure prediction of putative UDP-Glycosyltransfer-ase 76G1 protein in stevia Rebaudiana MS007

Mokthar, Nor Iswani and Samsulrizal, Muhammad Amirul Husni and Ramatullah Khan, Afiqah and Zainuddin, Zarina and Sundram, Tamil Chelvan Meenakshi and Yusof, Nik Yusnoraini and Samsulrizal, Nurul Hidayah (2022) In silico analysis and 3d structure prediction of putative UDP-Glycosyltransfer-ase 76G1 protein in stevia Rebaudiana MS007. Journal of Tropical Life Science, 3 (12). pp. 377-387. ISSN 2087-5517 E-ISSN 2527-4376

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Abstract

Stevia rebaudiana is a plant of the Asteraceae family that is used as a natural sweet-ener. Stevia has been shown to be safe for human consumption and has been utilised as a sweetener substitute for diabetic and obese people. In this study, the structure and gene content involved in the synthesis of putative UDP-glycosyltransferase 76G1 (UGT76G1) protein in S. rebaudiana MS007 were analysed using an in-silico method. Homologous search using BlastP revealed the highest percentage of identity, score, and E-value for UDP-glycosyltransferase 76G1-like of Helianthus annuus (ID: XP_021973845.1). The presence of IPR002213 UDP-glucuronosyl/UDP-glucosyl-transferase entry, which is available at locations 89bp to 246 bp, was also verified by the protein family search using InterPro. MEGA-X software was used to construct a molecular phylogeny study, revealing that this protein belongs to the Asteraceae fam-ily. To predict the primary, secondary, and tertiary protein structures of the putative UGT76G1 protein, the ProtParam, ExPasy, PSIPRED, and Phyre2 programmes were implemented. The putative UGT76G1 protein’s tertiary structure prediction was given a score of 100.0% confidence by the single highest scoring template and a coverage of 98%, with the dimension of the model being (Å) of X: 52.453, Y: 61.270, and Z: 48.102. The UGT76G1 model fulfilled the quality standards and was approved for further analysis after validation performed by PROCHECK, VERIFY3D, and ER-RAT. Thus, the findings of this work have contributed to a better knowledge of puta-tive UDP-glycosyltransferase 76G1 features and target recognition processes, which will lead to better information on protein-protein interaction in S. rebaudiana MS007.

Item Type:	Article (Journal)
Uncontrolled Keywords:	Phylogenetic, Stevia rebaudiana, UGT76G1, 3D Structure Prediction
Subjects:	S Agriculture > S Agriculture (General) S Agriculture > SB Plant culture
Kulliyyahs/Centres/Divisions/Institutes (Can select more than one option. Press CONTROL button):	Kulliyyah of Science > Department of Plant Science
Depositing User:	Dr Nurul Hidayah Samsulrizal
Date Deposited:	29 Sep 2022 08:24
Last Modified:	29 Sep 2022 08:24
URI:	http://irep.iium.edu.my/id/eprint/100169

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