In silico modeling of the interaction between TEX19 and LIRE1, and analysis of TEX19 gene missense SNPs

Abstract

Background Testis expressed 19 (TEX19) is a specific human stem cell gene identified as cancer‐testis antigen (CTA), which emerged as a potential therapeutic drug target. TEX19.1, a mouse paralog of human TEX19, can interact with LINE‐1 retrotransposable element ORF1 protein (LIRE1) and subsequently restrict mobilization of LINE‐1 elements in the genome. Aim This study aimed to predict the interaction of TEX19 with LIRE1 and analyze TEX19 missense polymorphisms. TEX19 model was generated using I‐TASSER and the interaction between TEX19 and LIRE1 was studied using the HADDOCK software. Methods The stability of the docking formed complex was studied through the molecular dynamic simulation using GROMACS. Missense SNPs (n=102) of TEX19 were screened for their potential effects on protein structure and function using different software. Results Outcomes of this study revealed amino acids that potentially stabilize the predicted interaction interface between TEX19 and LIRE1. Of these SNPs, 37 were predicted to play a probably damaging role for the protein, three of them (F35S, P61R, and E55L) located at the binding site of LIRE1 and could disturb this binding affinity. Conclusion This information can be verified by further in vitro and in vivo experimentations and could be exploited for potential therapeutic targets.

Association of SNPs within TMPRSS6 and BMP2 genes with iron deficiency status in Saudi Arabia

“…The major causes of IDA in Saudi Arabia include inadequate consumption of Vitamin C, infrequent consumption of red meat and fish, and genetic/or family history of IDA [ 8 , 10 ]. Several polymorphisms have been previously reported in the Saudi population as causative single nucleotide polymorphisms (SNPs) in diseases such as breast cancer [ 12 – 16 ], colon cancer [ 17 – 19 ], diffuse parenchymal lung disease [ 20 ], and acute myeloid leukemia [ 21 , 22 ]. In addition, genetic risk factors for IDA and causative genes have also been identified including the TMPRSS6 gene [ 23 ].…”

The Fundamental Role of BARD1 Mutations and Their Applications as a Prognostic Biomarker for Cancer Treatment

“…To comprehend the pathogenesis and create a treatment plan, it is essential to identify the genetic and hereditary factors [51]. Numerous genes, including PALB2, ATM, BARD1, BRCA1, BRCA2, and CHEK2, have significantly maintained DNA fidelity and genomic integrity [52][53][54]. They are also essential in controlling the HR mechanics.…”

Maternal <i>TMPRSS6</i> Gene Polymorphism rs855791SNP in Women with Preeclampsia

“…Recently, genetic factors have been identified that may play an essential role in the pathogenesis of IDA [23]. Several polymorphisms have been previously reported in the Saudi population as causative Single Nucleotide Polymorphisms (SNPs) in diseases such as breast cancer [24], colon cancer [25], diffuse parenchymal lung disease [19] [26], and acute myeloid leukemia [24]. In addition, genetic risk factors for IDA and causative genes have also been identified including the TMPRSS6 gene [26].…”