Questing functions and structures of hypothetical proteins from Campylobacter jejuni: a computer-aided approach

• Published in: Bioscience reports Vol. 40; no. 6
• Main Authors: Gazi, Md Amran, Mahmud, Sultan, Fahim, Shah Mohammad, Islam, Md Rezaul, Das, Subhasish, Mahfuz, Mustafa, Ahmed, Tahmeed
• Format: Journal Article
• Language: English
• Published: England Portland Press Ltd 26.06.2020
• Subjects: Bacterial Proteins - chemistry; Bacterial Proteins - genetics; Bacterial Proteins - metabolism; Bioinformatics; Campylobacter jejuni - genetics; Campylobacter jejuni - metabolism; Computational Biology; Computer Simulation; Databases, Protein; Microbiology; Protein Conformation; Protein Interaction Maps; Structure-Activity Relationship; Workflow; NCBI; in silico; hypothetical protein; gastroenteritis; Campylobacter
• ISSN: 0144-8463; 1573-4935
• DOI: 10.1042/BSR20193939

Campylobacter jejuni (C. jejuni) is considered to be one of the most frequent causes of bacterial gastroenteritis globally, especially in young children. The genome of C. jejuni contains many proteins with unknown functions termed as hypothetical proteins (HPs). These proteins might have essential biological role to show the full spectrum of this bacterium. Hence, our study aimed to determine the functions of HPs, pertaining to the genome of C. jejuni. An in-silico work flow integrating various tools were performed for functional assignment, three-dimensional structure determination, domain architecture predictors, subcellular localization, physicochemical characterization, and protein-protein interactions (PPIs). Sequences of 267 HPs of C. jejuni were analyzed and successfully attributed the function of 49 HPs with higher confidence. Here, we found proteins with enzymatic activity, transporters, binding and regulatory proteins as well as proteins with biotechnological interest. Assessment of the performance of various tools used in this analysis revealed an accuracy of 95% using receiver operating characteristic (ROC) curve analysis. Functional and structural predictions and the results from ROC analyses provided the validity of in-silico tools used in the present study. The approach used for this analysis leads us to assign the function of unknown proteins and relate them with the functions that have already been described in previous literature.