title: Functional and structural analysis of mice TRPC6 with human analogue through homology modelling.
abstract: Homology models are increasingly used to determine structural and functional relationships of genes and proteins in biomedical research. In the current study, for the first time, we compared the TRPC6 gene in mouse and human. The protein encoded by this gene forms a receptor activated calcium channel in cell membrane. Defects in this gene have been implicated in a wide range of diseases including glioblastomas. To determine the structural similarities in mouse and human TRPC6, we used standard bioinformatics tools such as fold prediction to identify the protein 3D structure, sequence-structure comparison, and prediction of template and protein structure. We also used glioblastoma cell line U373MG and human glioblastoma tumour tissues to study the expression of TRPC6 in disease conditions to implicate this gene in pathological ailment. Based on the results we conclude that human TRPC6 contains 90% identity and 93% similarity with mouse TRPC6, suggesting that this protein is well conserved in these two species. These isoforms likely demonstrate similar mechanisms in regulating gene expression; thus TRPC6 studies in mice may be extrapolated to humans.
authors.affiliation: Burnett School of Biomedical Sciences, College of Medicine, University of Central Florida, 4000 Central Florida Blvd, Orlando, FL 32816, USA.
authors.forename: Soumya
authors.initials: S
authors.lastname: Chigurupati
authors.affiliation: University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.
authors.forename: Arnima
authors.initials: A
authors.lastname: Bhasin
authors.affiliation: Department of Chemistry, University of Hyderabad, Hyderabad 500046, India.
authors.forename: Krishna Kishore
authors.initials: KK
authors.lastname: Inampudi
authors.affiliation: University of Illinois College of Medicine at Peoria, One Illini Drive, Peoria, IL, 61656, USA.
authors.forename: Swapna
authors.initials: S
authors.lastname: Asuthkar
authors.affiliation: Department of Virology, Sri Venkateswara University, Tirupati 517502, India.
authors.forename: Bhanupriya
authors.initials: B
authors.lastname: Madarampalli
authors.affiliation: Burnett School of Biomedical Sciences, College of Medicine, University of Central Florida, 4000 Central Florida Blvd, Orlando, FL 32816, USA.
authors.forename: Ramana Kumar
authors.initials: RK
authors.lastname: Kammili
authors.affiliation: University of Illinois College of Medicine at Peoria, One Illini Drive, Peoria, IL, 61656, USA.
authors.forename: Kiran Kumar
authors.initials: KK
authors.lastname: Velpula
mesh_terms: D000465:Algorithms; D000595:Amino Acid Sequence; D000818:Animals; D001932:Brain Neoplasms / Q000378:metabolism; D045744:Cell Line, Tumor; D019295:Computational Biology / Q000379:methods; D003198:Computer Simulation; D005909:Glioblastoma / Q000378:metabolism; D006801:Humans; D021621:Imaging, Three-Dimensional; D051379:Mice; D008958:Models, Molecular; D008969:Molecular Sequence Data; D020033:Protein Isoforms / Q000235:genetics; D017433:Protein Structure, Secondary; D016415:Sequence Alignment; D017386:Sequence Homology, Amino Acid; D012984:Software; D050052:TRPC Cation Channels / Q000235:genetics*; D000074287:TRPC6 Cation Channel
chemical_list: D020033:Protein Isoforms; D050052:TRPC Cation Channels; D000074287:TRPC6 Cation Channel; C117032:TRPC6 protein, human
keywords: TPRC6 gene; bioinformatics; brain tumour; fold prediction; functional analysis; gene expression; glioblastoma; homology modelling; human analogue; mice; protein 3D structure sequence–structure comparison; protein structure; structural similarities