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All Journal Scientific Journal of Informatics Biosaintifika: Journal of Biology & Biology Education
Ali, Mazhar
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Agriculture, Biological Sciences & Forestry Computer Science & IT

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In Silico Molecular Docking Analysis of Limonene with The Fat Mass and Obesity-Associated Protein by Using Autodock Vina Ahmed, Muhammad Zeeshan; Hameed, Shahzeb; Ali, Mazhar; Zaheer, Ammad
Scientific Journal of Informatics Vol 8, No 1 (2021): May 2021
Publisher : Universitas Negeri Semarang

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15294/sji.v8i1.29051

Abstract

Purpose: This study aimed to predict the binding affinity, orientation, and physical interaction between limonene and fat mass and obesity-associated protein. Methods: The mechanism of limonene and protein association was explored by molecular docking, a bioinformatic tool. The association results were compared with the reported results of the anti-obesity drug such as orlistat and with the flavonoids. AutoDock Vina tools were used for the molecular docking of limonene with fat mass and obesityassociated protein. PyMol and Discovery Studio Visualizer was used to visualize the results of this docking. Result: The binding affinity of limonene was higher (Least negative G) than the orlistat and flavonoids such as Daidzein, Exemestane, Kaempherol, Letrozole, And Rutin. Novelty: In this study, the limonene can alleviate obesity by interacting with the fat mass and obesity-associated protein. This inhibitory interaction was more significant as compared to other reported phytochemicals and drugs. Keywords: AutoDock Vina, Binding Affinity, Limonene, Molecular Docking. 
In Silico Molecular Docking Analysis of Limonene with The Fat Mass and Obesity-Associated Protein by Using Autodock Vina Ahmed, Muhammad Zeeshan; Hameed, Shahzeb; Ali, Mazhar; Hizbullah, Syed; Zaheer, Ammad
Scientific Journal of Informatics Vol 8, No 1 (2021): May 2021
Publisher : Universitas Negeri Semarang

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15294/sji.v8i1.29051

Abstract

Purpose: This study aimed to predict the binding affinity, orientation, and physical interaction between limonene and fat mass and obesity-associated protein. Methods: The mechanism of limonene and protein association was explored by molecular docking, a bioinformatic tool. The association results were compared with the reported results of the anti-obesity drug such as orlistat and with the flavonoids. AutoDock Vina tools were used for the molecular docking of limonene with fat mass and obesity-associated protein. PyMol and Discovery Studio Visualizer was used to visualize the results of this docking. Result: The binding affinity of limonene was higher (Least negative G) than the orlistat and flavonoids such as Daidzein, Exemestane, Kaempherol, Letrozole, And Rutin. Novelty: In this study, the limonene can alleviate obesity by interacting with the fat mass and obesity-associated protein. This inhibitory interaction was more significant as compared to other reported phytochemicals and drugs.
The Role of Endophyte Bacteria in The Growth and Yield of Various Rice Varieties in Rainfed Rice Lands Wiyono , Wiyono; Ambawati, Galih Saras; Priyadi, Sapto; Daryanti , Daryanti; Aziez, Achmad Fatchul; Ali, Mazhar
Biosaintifika: Journal of Biology & Biology Education Vol. 16 No. 3 (2024): December 2024
Publisher : Universitas Negeri Semarang

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15294/biosaintifika.v16i3.15286

Abstract

Rainfed land typically lacks essential nutrients, including nitrogen. An endophytic bacterial consortium can fix nitrogen from the air, potentially enhancing the growth and yield of lowland rice varieties. The aim of this research was to assess the growth and yield of various lowland rice varieties when treated with a consortium of diazotrophic endophytic bacteria in rainfed land. This study was conducted in rainfed rice fields in Demangan, Sambi, Boyolali, Central Java, Indonesia, to evaluate the growth of rice varieties at different doses of the endophytic bacterial consortium. A completely randomized block design was employed, featuring two factors and three replications. The first factor was the endophytic bacterial consortium, applied at doses of 0, 20, 30, and 40 L/ha/application. The second factor consisted of three rice varieties: Situbagendit, Ciherang, and Mekongga. The results indicated that (1) the dose of endophytic bacteria had a very significant effect on dry shoot weight, dry plant weight, 1,000 grain weight, and panicle length; (2) rice varieties had a significant effect only on fresh shoot weight; and (3) the interaction between the dose of endophytic bacteria and rice varieties did not significantly affect any of the observed parameters. This research suggests that to enhance rice growth and yield in rainfed rice fields, a dose of 40 L/ha/application of the diazotrophic endophytic bacterial consortium is recommended, along with the use of the Situbagendit, Ciherang, or Mekongga varieties.  
Co-Authors Achmad Fatchul Aziez Ahmed, Muhammad Zeeshan Ambawati, Galih Saras Daryanti , Daryanti Hameed, Shahzeb Hizbullah, Syed Sapto Priyadi Wiyono , Wiyono Zaheer, Ammad