Analysis of sequence and structure for beta-2-microglobulin in patients with thyroid cancer using bioinformatics tools

Abstract

Bioinformatics tools used to employ the technology that utilizes computers to manage biological data, to analysis the sequence and structure of the protein. The current study aimed to compute the physio-chemical properties and predicting structures of Beta-2-microglobulin (B2M) in patients with thyroid cancer, 14 patients with thyroid carcinoma included in this study. The DNA was extracted and B2M gene was amplified by using specific primers for three exons of this gene. Thirty-two mutations found in the patients for first and second exons while in third exon no mutations detected. In the first exon, a point mutation at the site 44,711,557 observed in all patients except one patient. In the second exon a point mutation at the site 44,715,448 observed in all patients except two patients, these mutations recorded in the GenBank at NCBI, ENA and DDBJ databases with the number LC424501 and LC424502, respectively. The results of the ProtParam program showed that the mutations affected the physio-chemical properties of B2M protein for patients compared to B2M protein retrieved from NCBI. Also, results of secondary structure prediction of B2M protein by SOPMA tool showed that the mutations affected the percentages of alpha helix, extended strand, beta turn and a random coil of B2M protein for patients compared to B2M protein retrieved from NCBI. The results of the RaptorX server showed that the impact of mutations was clear on the tertiary structure of B2M protein for patients compared to B2M protein retrieved from NCBI.