Mohammad Taghizadeh

Islamic Azad University Tehran North Branch · Faculty of Biology

Purpose: Leishmania causes multiple types of leishmaniasis in different parts of the world. It has a lack of metabolic machine to produce purine bases. Therefore, the parasite produces purine bases through the breakdown of nutritional nucleotides and it makes the nucleoside hydrolases (NHs) good drug targets. They have different substrate-preferrin...

The physical interaction of proteins which lead to compiling them into large densely connected networks is a noticeable subject to investigation. Protein interaction networks are useful because of making basic scientific abstraction and improving biological and biomedical applications. Based on principle roles of proteins in biological function, th...

Since the introduction of the first protein side-chain rotamer library (RL) almost half a century ago, RLs have been component of many software and algorithms in structural bioinformatics. Based on the dependence of the side-chain dihedral angles on the local backbone, three types of RLs has been identified: backbone independent, secondary structur...

Background: The involvement of multiple genes and missing heritability, which are dominant in complex diseases such as multiple sclerosis (MS), entail using network biology to better elucidate their molecular basis and genetic factors. We therefore aimed to integrate interactome (protein-protein interaction (PPI)) and transcriptomes data to constr...

Human serum albumin (HSA) is a soluble blood protein which binds to small molecules (such as drugs and toxins) and transfers them within the blood circulation. In this research, the interaction of diazinon, as a toxic organophosphate, with HSA was investigated. Various biophysical methods such as fluorescence, ultraviolet–visible (UV-vis), Fourier...

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Introduction: P53 is a tumor suppressor protein with numerous missense mutations identified in its gene. These mutations are observed in a vast number of cancers. R213G is one of them which has a role in metastatic lung cancers. In this research, R213G was studied in comparison with the wild type via molecular dynamics simulation. Method: For the t...

Type 1 diabetes (T1D) occurs as a consequence of an autoimmune attack against pancreatic β-cells. Due to a lack of a clear understanding of the T1D pathogenesis, the identification of effective therapies for T1D is the active area in the research. The study purpose was to prioritize potential drugs and targets in T1D via systems biology approach. G...

Background and Aim Human Serum Albumin (HSA) is one of the most abundant proteins in the blood vascular system which regulates the transportation of many chemical compounds and molecules. The purpose of this study is to review the studies about the effects of three groups of pesticides (Insecticides, herbicides and fungicides) on the molecular stru...

Purpose: Type 1 diabetes (T1D) and multiple sclerosis (MS) are classified as T cell-mediated autoimmune diseases. Although convergent evidence proposed common genetic architecture for autoimmune diseases, it remains a challenge to identify them. This study aimed to determine common gene signature and pathways in T1D and MS via systems biology appr...

Introduction: FAD is the cofactor of FAD-FR protein family. Sulfite reductase flavoprotein alphacomponent is one of the main enzymes of this family. Based on applications of this enzyme in biotechnology and industry, it was chosen as the subject of evolutionary studies in 19 specific species. Method: Gene and protein sequences of sulfite reductase...

Introduction: Human Serum Albumin is one of the most important proteins in blood that can bind a wide range of components and different drugs such as Warfarin. Therefore, studying human serum albumin is very significant in pharmacology. In this research, dynamic behavior of residues of Warfain binding site of human serum albumin was investigated. M...

Background and Aims: The rate of variation in various genes of a bacterial species is different during evolution. Therefore, in systematic bacterial studies many researchers compare the phylogenetic tree of a particular gene to the standard tree of an rRNA gene. Regarding the importance of 16SrRNA gene and the evolutionary process of RecA protein f...

Membranous glomerulonephritis (MGN) is one of the most frequent causes of nephrotic syndrome in adults. It is characterized by the thickening of the glomerular basement membrane in the renal tissue. The current diagnosis of MGN is based on renal biopsy and the detection of antibodies to the few podocyte antigens. Due to the limitations of the curre...

Introduction: Multiple sclerosis (MS) is the most common central nervous system (CNS) demyelinating disease. New methods are substantive in order to have a better understanding its pathogenesis and also identifying new therapeutic targets for the disease. The aim of this study was to use network biology approach to identify potential key markers in...

Recently, 6 crystallographic structures of the pharmacologically important human serotonin transporter protein (5-HTT) were reported. Using two of these structures (PDB-IDs: 5i6z, 5i71) and two homology models, we have studied the amino acid composition of 5-HTT to better understand the structural and functional roles of membrane helices in transpo...

Background: Type 1 diabetes (T1D) is an autoimmune disease in which pancreatic beta cells are destroyed by infiltrating immune cells. Bilateral cooperation of pancreatic beta cells and immune cells has been proposed in progression of T1D, but there is no systems study to investigate it. Here, we aimed to explicate etiological molecular basis and i...

Introduction: Type 1 diabetes (T1D) results from autoimmune destruction of insulin-producing beta cells in pancreatic islets of Langerhans. To develop efficient treatments for T1D, it is required to identify suitable therapeutic markers. Systems biology offers approaches to better understanding of functional elements in the disease. Our aim was to...

Introduction: Type 1 diabetes (T1D) results from autoimmune destruction of insulin-producing beta cells in pancreatic islets of Langerhans. To develop efficient treatments for T1D, it is required to identify suitable therapeutic markers. Systems biology offers approaches to better understanding of functional elements in the disease. Our aim was to...

Background: Protein flexibility, which has been referred as a dynamic behavior has various roles in proteins’ functions. Furthermore, for some developed tools in bioinformatics, such as protein-protein docking software, considering the protein flexibility, causes a higher degree of accuracy. Through undertaking the present work, we have accomplishe...

Since the introduction of the first protein side-chain rotamer library (RL) almost half a century ago, RLs have been components of many programs and algorithms in structural bioinformatics. Based on the dependence of side-chain dihedral angles on the local backbone, three types of RLs have been identified: backbone-independent, secondary-structure-...

Background: Protein-protein interaction (PPI) databases have become major sources to study networks and cellular pathways, which can be utilized to get invaluable information in biomedical researches. There are some public PPI databases have already deposited the large amount of experimentally verified interactions from literatures using different...

Protein-protein interaction (PPI) maps or "interactome" represent a global view of cellular functions and biological processes. There are more than 130 public databases which have been already established to store the sizeable amount of PPI data. The valuable data is available for a wide group of researchers via adopting common data standards and c...

Modified β-casein (mβ-CN) was investigated as an efficient additive for thermal reversibility of human carbonic anhydrase II (HCA II) at pH 7.75. The mβ-CN was obtained via modification of β-casein (β-CN) acidic residues using Woodward's reagent K. The effects of mβ-CN on the reversibility and stability of HCA II were determined by differential sca...

Background and aim: Rab23 is a member of the Rab family of proteins that regulate the fusion and docking of vesicle membranes to membrane of eukaryotic cells. This protein is a spontaneous negative regulator of hedgehog signaling in vertebrates. Hedgehog signaling has a critical role in tissue and organs of vertebrates which has associate with cong...

Silica nanoparticle supported imidazolium ionic liquid [SNImIL] was synthesized and utilized as a biocompatible additive for studying the thermal reversibility of human carbonic anhydrase II (HCA II). For this purpose, we prepared additive by modification of nanoparticles through the grafting of ionic liquids on the surface of nanoparticles (SNImIL...

In this project, we investigated Rad51D-DNA interactions via Hex software to find some missing pieces of homologous recombination repair mechanism.

Beta-amyloid peptide (Abeta) is believed to play a recognized role in pathogenesis of Alzheimer's disease (AD). Self-association of Abeta peptide into amyloid fibrils causes neurotoxicity. Compounds capable of interfering with Abeta-Abeta interaction through binding to nucleation sites can inhibit Abeta amyloidogenesis and Abeta-induced cytotoxicit...

Background: Rad51 is a protein with critical role in double strand break repair. Down-regulation of this protein has a significant effect in radiosensitivity of some cell lines like prostate carcinoma. Compared to monolayer cell culture model, the spheroids are more resistant to radiation. The aim of the current study was to determine the Rad51 pro...