PHYSIOCHEMICAL ANALYSIS OF SNAKIN 1 PEPTIDE IN FAMILY SOLANACEAE

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Published: 2021-03-08

Page: 74-84


MUHAMMAD ZAFAR SALEEM *

Centre for Applied Molecular Biology, University of the Punjab, Lahore, Pakistan

JAVARIA ABBAS

Centre for Applied Molecular Biology, University of the Punjab, Lahore, Pakistan

SUMAIA SAIF

Centre for Applied Molecular Biology, University of the Punjab, Lahore, Pakistan

SHAHBAZ AHMAD

Institute of Agricultural Sciences, University of the Punjab Lahore, Lahore, Pakistan

NAUMAN AHMAD

Centre for Applied Molecular Biology, University of the Punjab, Lahore, Pakistan

FAHEEM HADI

Institute of Molecular Biology and Biotechnology, The University of Lahore, Lahore, Pakistan.

WAZIR AHMED

Department of Soil and Environmental Sciences, MNS University of Agriculture, Multan, Pakistan

MUHAMMAD TAHIR

Institute of Molecular Biology and Biotechnology, The University of Lahore, Lahore, Pakistan

QURBAN ALI

Institute of Molecular Biology and Biotechnology, The University of Lahore, Lahore, Pakistan

*Author to whom correspondence should be addressed.


Abstract

Snakin protein is a class of cysteine rich peptides. Snakin 1 is the cell wall associated proteins and act as anti-fungal as well as anti-bacterial peptides and caused a quick aggregation of gram negative as well as positive bacteria. In this article, physiochemical analysis of Snakin 1 peptide in seven members of Solanaceae family was carried out using bioinformatics tools. It included their isoelectric point, molecular weight, extinction coefficient, aliphatic index, negative and positive R group, instability index and the grand average hydropathy. Moreover, their primary structures analysis showed that all proteins are hydrophobic in nature. Secondary structures were evaluated using SOPMA. Helical wheel structure was also identified using Pep Wheel software. Sequence alignment and phylogenetic analysis was also done. Swiss model of the protein was also analysed with its rampage analysis. The given information may be helpful to provide an efficient basis in the functional analysis for experimentally isolated or derived Snakin peptides.

Keywords: Snakin 1, physiochemical properties, anti-microbial, pI, EC, AI, helical wheel, hydrophobicity, swiss model.


How to Cite

SALEEM, M. Z., ABBAS, J., SAIF, S., AHMAD, S., AHMAD, N., HADI, F., AHMED, W., TAHIR, M., & ALI, Q. (2021). PHYSIOCHEMICAL ANALYSIS OF SNAKIN 1 PEPTIDE IN FAMILY SOLANACEAE. PLANT CELL BIOTECHNOLOGY AND MOLECULAR BIOLOGY, 22(15-16), 74–84. Retrieved from https://ikprress.org/index.php/PCBMB/article/view/6031

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