In-Silico Characterization and Homology Modelling of Membrane Bound Proteins in Different Rice Cultivars
KRISHI: Publication and Data Inventory Repository
View Archive InfoField | Value | |
Title |
In-Silico Characterization and Homology Modelling of Membrane Bound Proteins in Different Rice Cultivars
Not Available |
|
Creator |
S. Kumar, Arup Kumar Mukherjee, S.R. Dash
|
|
Subject |
UniprotKB, SWISS model, homology modeling, Phospholipase D.
|
|
Description |
Not Available
Various stresses which include majorly drought, salt and metal ions present in the soil adversely affects the growth and survival of the rice cultivars produced by various methods. To combat these researchers and scientist with the help of computational and systems biology are characterizing proteins involved for the resistance of these stresses to have the availability and reach of the rice cultivar across the globe with cost effectiveness keeping in mind. There are many of the proteins which are yet to be discovered, and many of them which have been discovered do not have their 3-D structure determined. So, there comes the application of homology modelling. Another reason for choosing homology modelling is, since proteins which are targeted here are membrane bound, they are hard to crystallize hence homology modelling becomes the most suitable way to determine and study their functionality. Proteins such as remorin 1.4, Phospholipase D, HIR protein LT1A, LT1B are some of the proteins which came into light after some research from already uploaded data from various journals and protein databases such as the UniprotKB. Using the database proteins were characterized based on biotic and abiotic stresses and proceeded accordingly. For modelling, an online software named SWISS Model was used to select the template and even helped in making the whole model with required scores to assess the quality of the model, respectively. To further refine the model modrefiner online software was used to refine the model to the extent where its score is better with bad angles and bonds removed respectively hence giving us a refined version of the model compared to the ones made by SWISS model directly. Templates or reference sequences were chosen based on ideal characteristics seen in Arabidopsis thaliana also seeing their sequence similarity which were automatically shown in the SWISS Model. Managed to model three of the total proteins mentioned which showed great scores after refining models. ERRAT online software was also used to give us the verification of the structure obtained. Not Available |
|
Date |
2023-04-10T11:33:19Z
2023-04-10T11:33:19Z 2023-01-01 |
|
Type |
Research Paper
|
|
Identifier |
S. Kumar, A.K. Mukherjee, S.R. Dash(2023).In-Silico Characterization and Homology Modelling of Membrane Bound Proteins in Different Rice Cultivars. Grenze International Journal of Engineering and Technology 9(1):1561-1567.
2395-5287 http://krishi.icar.gov.in/jspui/handle/123456789/76785 |
|
Language |
English
|
|
Relation |
Not Available;
|
|
Publisher |
GRENZE Scientific Society
|
|