title: Pyruvate dehydrogenase kinase 4 (PDK4) could be involved in a regulatory role in apoptosis and a link between apoptosis and insulin resistance.
abstract: Pyruvate dehydrogenase kinase 4 (PDK4), a mammalian mitochondrial serine kinase has emerged as an interesting candidate for diabetes therapy. Due to the high prevalence of this disease especially type 2 diabetes (T2D) and the health complications associated with it, there is extensive effort to find the appropriate treatment. Understanding the regulation of PDK4 activity would therefore contribute significantly to the development of therapeutic agents. This research outlines the utilization of bioinformatics tools such as Interweaver, ClustalW and Protein Structure Visualizer, in order to predict proteins that potentially interact with PDK4 and possibly regulate its activity. Interweaver database identified 96 proteins that have possible interaction sites for PDK4. Protein p100/p49, containing a death domain that is known to have a role in suppressing apoptosis, was identified as a potential partner for PDK4. The alignment between p100/p49 primary sequence and that of PDK4 using ClustalW demonstrated sequence similarity between the two proteins. Swiss PDB Viewer then located the positions of the amino acids that are in the hypothetical protein binding motif of p100/p49 within the 3D structure of hPDK4. These amino acids were found to be located in the region of PDK4 which is known to bind protein substrates of PDK4 and may be accessible to other proteins as well. These findings were very interesting as PDK4 has not previously been associated with apoptosis and this could be the link between apoptosis and insulin resistance. Cell biology studies were then performed to verify the relationship between PDK4 and apoptosis. In this regard, HeLa and HepG2 cells were treated with apoptosis-inducing agents such as TNFα, C2-ceramide, and linoleic acid. These cells were then monitored for apoptosis and PDK4 mRNA expression using a DNA laddering assay as well as Real Time PCR. The results showed that these factors induced apoptosis in a concentration dependent manner and suppressed PDK4 mRNA levels. These findings suggested a relationship between PDK4 and apoptosis.
authors: Innovation & Engagements Portfolio, Mangosuthu University of Technology Research, Durban, South Africa. Electronic address: Zodwa.Dlamini@bristol.ac.uk.
authors: Zodwa
authors: Z
authors: Dlamini
authors: Merck Chemicals (Pty) Ltd, Wadeville, Germiston, South Africa.
authors: Patricia
authors: P
authors: Ntlabati
authors: Department of Biochemistry, Microbiology and Biotechnology, University of Limpopo, South Africa.
authors: Zukile
authors: Z
authors: Mbita
authors: Technology Innovation Agency, Durban, Umbogintwini, South Africa.
authors: Lungile
authors: L
authors: Shoba-Zikhali
mesh_terms: D020816:Amino Acid Motifs; D000595:Amino Acid Sequence; D017209:Apoptosis; D001665:Binding Sites; D006367:HeLa Cells; D056945:Hep G2 Cells; D006801:Humans; D007333:Insulin Resistance; D008969:Molecular Sequence Data; D052003:NF-kappa B p52 Subunit / Q000737:chemistry / Q000378:metabolism; D011485:Protein Binding; D017346:Protein Serine-Threonine Kinases / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D000081382:Pyruvate Dehydrogenase Acetyl-Transferring Kinase; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism
chemical_list: D052003:NF-kappa B p52 Subunit; C000631432:PDK4 protein, human; D000081382:Pyruvate Dehydrogenase Acetyl-Transferring Kinase; D012333:RNA, Messenger; D017346:Protein Serine-Threonine Kinases
keywords: ClustalW; Interweaver; Protein p100/p49; Protein structure visualizer; Swiss PDB viewer; Type 2 diabetes (T2D)