Article
Biochemistry & Molecular Biology
Cuneyt Turkes, Yeliz Demir, Sukru Beydemir
Summary: The study found that some calcium channel blockers may act as potential inhibitors of hCA I and hCA II, with nimodipine showing the best performance. These compounds could be useful in developing new CA inhibitors.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2021)
Article
Biochemistry & Molecular Biology
Busra Caliskan, Yeliz Demir, Cuneyt Turkes
Summary: The study tested several ophthalmic drugs used for treating eye diseases for their inhibition activities against PON1, an enzyme known for preventing atherosclerosis. The results showed potent inhibition effects, with travoprost demonstrating the strongest effect on PON1 enzyme activity according to both in vitro and in silico analyses.
BIOTECHNOLOGY AND APPLIED BIOCHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Isil Nihan Korkmaz, Cuneyt Turkes, Yeliz Demir, Hasan Ozdemir, Sukru Beydemir
Summary: The study investigated the effect of methyl benzoate compounds on PON1 activity, revealing their inhibitory properties and identifying the most potent compound. Ligand-receptor interaction prediction was performed to characterize the binding modes of methyl benzoate compounds with PON1.
JOURNAL OF BIOCHEMICAL AND MOLECULAR TOXICOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Ramazan Kalin, Zeynep Koksal, Songul Bayrak, Serpil Gerni, Isil Nihan Ozyurek, Hande Usanmaz, Muhammet Karaman, Ali Atasever, Hasan Ozdemir, Ilhami Gulcin
Summary: This study tested the inhibition effects of several antibiotics on lactoperoxidase (LPO) and found that cefazolin exhibited the strongest inhibitory efficacy. The study also identified the key role of the 5-methyl-1,3,4-thiadiazol-2-yl moiety in the inhibition mechanism of cefazolin.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2022)
Review
Genetics & Heredity
Marija Vavlukis, Ana Vavlukis, Katerina Krsteva, Sonja Topuzovska
Summary: Paraoxonase 1 (PON1) is an enzyme with multiple functions, and several PON1 gene polymorphisms related to cardiovascular diseases have been proven in clinical studies. Different polymorphisms affect the concentration and activity of PON1, thus influencing atherosclerosis. PON1 genotyping may be reasonable in patients with high and very high cardiovascular risk.
FRONTIERS IN GENETICS
(2022)
Article
Biochemistry & Molecular Biology
Faramarz Jalili, Cyrus Jalili, Ali R. Jalalvand, Nader Salari, Ali Pourmotabbed, Hadi Adibi
Summary: The prevalence of hyperlipidemia has increased worldwide, posing a major public health threat. Genetic factors, dietary and lifestyle habits play crucial roles in its development. Hyperlipidemia increases the risk of obesity, cardiovascular disease, and type II diabetes. This study aimed to evaluate the effects of urazine derivatives on lipid levels in hyperlipidemic rats. The results showed that urazine derivatives effectively reduced cholesterol and triglyceride levels and increased HDL levels in high-fat diet-induced hyperlipidemic rats.
BIOORGANIC CHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
Muhammad Nawaz, Muhammad Taha, Faiza Qureshi, Nisar Ullah, Manikandan Selvaraj, Sumaira Shahzad, Sridevi Chigurupati, Samar A. Abubshait, Tauqir Ahmad, Sampath Chinnam, Soleiman Hisaindee
Summary: This study reported the synthesis and inhibitory potential of indazole derivatives against a-amylase and a-glucosidase enzymes, with some compounds exhibiting comparable inhibitory activities to standard acarbose. The influence of different substituents on enzyme inhibition activities was assessed, and molecular docking simulations were performed to rationalize the binding of derivatives/compounds with enzymes. The synthesized derivatives were characterized using spectroscopic instruments.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2022)
Article
Biochemistry & Molecular Biology
Onur Argan, Kubra Cikrikci, Harun Uslu, Nahit Gencer
Summary: In this study, the effects of 38 commonly used cardiac drugs on human paraoxonase (PON1) were investigated. It was found that some of these drugs showed strong PON1 inhibitory activity, while others had weaker effects. These findings provide guidance for the selection of drugs for patients with atherosclerotic heart disease.
CHEMICAL BIOLOGY & DRUG DESIGN
(2022)
Article
Environmental Sciences
Adem Ergun
Summary: Using pesticides in agriculture has significant impacts on the environment and human health, particularly on the activity of the antioxidant enzyme hPON1. This study purified hPON1 and investigated its inhibition by various pesticides, finding that all of them showed inhibitory effects on the enzyme.
FRESENIUS ENVIRONMENTAL BULLETIN
(2022)
Article
Microbiology
Zhizeng Sun, Timothy Palzkill
Summary: The study identified essential active-site residues of the MCR-1 enzyme using deep sequencing, which are critical for its polymyxin resistance function. Approximately 75% of the residues examined were found to be essential for the enzyme's function, suggesting inhibitors binding near these sites will broadly inhibit MCR-1 and similar enzymes.
Article
Biochemistry & Molecular Biology
Janez Smerkolj, Jure Stojan, Aljosa Bavec, Marko Golicnik
Summary: Human paraoxonase-1 (PON1), the most studied member of the paraoxonases family, catalyzes the hydrolysis of various substrates. PON1 is linked to oxidative stress-related diseases, and analyzing progress curves reveals that it self-inactivates during catalytic turnover. Human serum albumin or surfactants can protect PON1 from inactivation.
CHEMICO-BIOLOGICAL INTERACTIONS
(2023)
Article
Chemistry, Physical
Mohammed Boulhaoua, Mohamed El Hafi, Saman Zehra, Larbi Eddaif, Awad A. Alrashdi, Sanae Lahmidi, Lei Guo, Joel T. Mague, Hassane Lgaz
Summary: A new indazole derivative CNIA was synthesized and found to have excellent corrosion inhibition properties on mild steel in HCl solutions, reducing corrosion rates significantly. The compound exhibited mixed type inhibition behavior and showed promising potential as a corrosion inhibitor for mild steel.
COLLOIDS AND SURFACES A-PHYSICOCHEMICAL AND ENGINEERING ASPECTS
(2021)
Review
Biochemistry & Molecular Biology
Zahra Najafi Arab, Danial Khayatan, Seyed Mehrad Razavi, Kimia Zare, Elnaz Kheradkhah, Saeideh Momtaz, Gianna Ferretti, Tiziana Bacchetti, Thozhukat Sathyapalan, Seyed Ahmad Emami, Amir Hossein Abdolghaffari, Amirhossein Sahebkar
Summary: Chronic diseases such as cardiovascular disease, atherosclerosis, chronic liver disease, and neurodegenerative diseases are major causes of mortality, with oxidative stress and free radicals playing important roles in their development. Antioxidants, including paraoxonases (PONs), can scavenge free radicals and mitigate their adverse effects. Modulating the expression of PON1, an important antioxidant enzyme, can have beneficial effects in various diseases by regulating inflammatory and oxidative stress signaling pathways. Dietary factors can influence PON1 expression and activity, making them important for disease prevention and treatment.
Article
Chemistry, Multidisciplinary
Sukru Beydemir, Cuneyt Turkes, Ahmet Yalcin
Summary: Medications display their biological effects through interaction with enzymes, which play a crucial role in the pathogenesis of various diseases. This study focuses on observing PON1-drug interactions, contributing to drug design in diseases like cardiovascular, neurological, metabolic, and cancer. The inhibitory activities of gadolinium-based contrast agents on PON1 enzyme were investigated, with specific IC50 and Ki values determined for different compounds.
DRUG AND CHEMICAL TOXICOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Debajeet Ghosh, Sneha Bansode, Rakesh Joshi, Baban Kolte, Rajesh Gacche
Summary: Baicalein, a plant flavonoid, has shown robust inhibition against pancreatic elastase and is considered a potentially better-suited alternative to Sivelestat. It has a lower IC50, is cheaper, safer, and easier to administer. Molecular studies have revealed its non-competitive mode of inhibition by binding to a distinct allosteric site on the enzyme. The current study demonstrates the elastase inhibition properties of baicalein in both in-vitro and in-silico environments.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2022)
Article
Biochemistry & Molecular Biology
Yeliz Demir, Feyzi Sinan Tokali, Erbay Kalay, Cuneyt Turkes, Pelin Tokali, Osman Nuri Aslan, Kivilcim Sendil, Sukru Beydemir
Summary: In the present study, a series of novel acyl hydrazone compounds were synthesized and investigated as inhibitors of the AR enzyme. Among them, compounds 5 and 10b showed significant inhibition against AR activity.
MOLECULAR DIVERSITY
(2023)
Article
Chemistry, Medicinal
Mehlika D. Altintop, Yeliz Demir, Cuneyt Turkes, Remzi B. Ozturk, Zerrin Canturk, Sukru Beydemir, Ahmet Ozdemir
Summary: In this study, new compounds 1-15 were designed and synthesized as aldose reductase (AR) inhibitors. Compound 4 showed the highest potency as an AR inhibitor, with K-i and IC50 values of 0.177 and 0.297 mu M, respectively. It demonstrated no cytotoxic activity towards normal cells and exhibited proper interactions with crucial amino acid residues within the active site of AR. Compound 4 stands out as a promising AR inhibitor for further in vivo studies.
ARCHIV DER PHARMAZIE
(2023)
Article
Chemistry, Medicinal
Yeliz Demir, Cuneyt Turkes, Muhammet S. Cavus, Musa Erdogan, Halit Muglu, Hasan Yakan, Sukru Beydemir
Summary: New Schiff base-bearing thiosemicarbazones were synthesized from 4-hydroxy-3,5-dimethoxy benzaldehyde and various isocyanates. The structures of the synthesized molecules were elucidated and their spectroscopic properties were determined using density functional theory calculations. The compounds exhibited potent inhibition effects against acetylcholinesterase and human carbonic anhydrases, and molecular docking studies confirmed the binding affinities of the most potent derivatives.
ARCHIV DER PHARMAZIE
(2023)
Article
Biochemistry & Molecular Biology
Chnar Kakakhan, Cuneyt Turkes, Ozcan Gulec, Yeliz Demir, Mustafa Arslan, Gizem Ozkemahli, Sukru Beydemir
Summary: A series of novel inhibitors of human alpha-carbonic anhydrase (hCA) were designed using a tail approach. These inhibitors showed remarkable selectivity for tumor isoforms hCA IX and XII. Adding a lipophilic naphthyl tail to the analogues increased the inhibitory and selective activities against hCA XII. The compounds also exhibited inhibitory effects against a human lung adenocarcinoma cancer cell line.
BIOORGANIC & MEDICINAL CHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
Yeliz Demir, Cuneyt Turkes, Omer Irfan Kufrevioglu, Sukru Beydemir
Summary: Cancer is a prevalent health issue that has been studied extensively in the past three decades. This study focused on the purification of GST and GR enzymes, which play important roles in cellular detoxification and protection against oxidative stress. The effects of fluorophenylthiourea derivatives on these enzymes were investigated, and 1-(2,6-difluorophenyl)thiourea showed the most promising inhibition effect. Molecular docking studies were conducted to explain the relationship between the inhibitors and the 3D structures of GST and GR.
CHEMISTRY & BIODIVERSITY
(2023)
Article
Biology
Zeynep Yagmur Babaoglu, Deryanur Kilic
Summary: In this study, compounds with indole scaffold were screened using Glide to target mPGES-1. Molecular simulation studies were used to determine the stability of the compounds. Cell experiments demonstrated that these indole-containing compounds may be potential inhibitors of mPGES-1 and have therapeutic potential for cancer and inflammation. They also serve as lead inhibitors for novel molecule design.
COMPUTERS IN BIOLOGY AND MEDICINE
(2023)
Article
Chemistry, Medicinal
Feyzi Sinan Tokali, Yeliz Demir, Cuneyt Turkes, Busra Dincer, Sukru Beydemir
Summary: A series of acetic acid derivatives containing quinazolin-4(3H)-one ring were synthesized and tested for AR inhibitory effect. Compound 19 showed the strongest inhibitory effect with nanomolar activity. It also exhibited lower toxicity against normal cells and had good absorption, distribution, metabolism, and excretion properties.
DRUG DEVELOPMENT RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Esra Palabiyik, Ayse Nurseli Sulumer, Handan Uguz, Bahri Avci, Seda Askin, Hakan Askin, Yeliz Demir
Summary: This study aimed to investigate the potential reparative impact of ethanol extract walnut seed coat (E-WSC) on metabolic enzymes activity in hyperlipidemia-induced rats. The results showed that E-WSC improved the effects of hyperlipidemia on balance and prevented alterations in the activity of metabolic enzymes. Therefore, E-WSC powder may be a promising natural compound for the treatment of cognitive disorders and hyperlipidemia as adjuvant therapy.
JOURNAL OF MOLECULAR RECOGNITION
(2023)
Article
Chemistry, Physical
Hasan Yakan, Halit Muglu, Cuneyt Turkes, Yeliz Demir, Musa Erdogan, Muhammet Serdar Cavus, Sukru Beydemir
Summary: This study synthesized fourteen new thiosemicarbazone derivatives and characterized their structures. The compounds exhibited potent inhibition effect on acetylcholinesterase and carbonic anhydrases. DFT analyzes and molecular docking studies were conducted to predict enzyme inhibition properties and confirm the most powerful derivatives. These novel thiosemicarbazone derivatives may have potential in the treatment of Alzheimer's disease, idiopathic intracranial hypertension, glaucoma, and related conditions.
JOURNAL OF MOLECULAR STRUCTURE
(2023)
Article
Biochemistry & Molecular Biology
Ozlem Demirci, Burcu Tezcan, Yeliz Demir, Tugba Taskin-Tok, Yetkin Gok, Aydin Aktas, Bilgehan Guzel, Ilhami Gulcin
Summary: In this study, we synthesized thirteen new 1-(4-acetylphenyl)-3-alkylimidazolium salts and investigated their inhibition activities against AChE and hCAs. The synthesized compounds showed highly potent inhibition effects, with most of them outperforming the standard inhibitors.
MOLECULAR DIVERSITY
(2023)
Article
Chemistry, Multidisciplinary
Cueneyt Turkes, Yeliz Demir, Abdullah Bicer, Gunseli Turgut Cin, Mehmet Serdar Gultekin, Sukru Beydemir
Summary: Aldose reductase (AR), an enzyme that converts glucose to fructose, plays an important role in diabetic complications. This study evaluated the inhibitory potential of bis-sulfide and bis-sulfone derivatives on AR. The results showed that these derivatives exhibited activity against AR, with some showing higher inhibitory activity than the currently utilized inhibitor in treatment.
Article
Biochemistry & Molecular Biology
Neslihan Dikbas, Fazilet Parlakova Karagoz, Sevda Ucar, Yeliz Demir
Summary: In order to improve the quality and yield of ornamental plants, especially potted ornamental plants, organic substances that create a significant cost in cultivation are added to the growing medium. This study evaluated the impact of inoculation of purified phytase at different levels in seeds and soaking times on the growth and decorative values of ornamental cabbage plants. The application of purified phytase generally improved the observed parameters, with the highest level of phytase enzyme doses resulting in increased plant height, main stem height, and stem diameter. The study showed that purified phytase enzyme can enhance the quality of ornamental cabbage and has potential applications in agricultural biotechnology.
BIOTECHNOLOGY AND APPLIED BIOCHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
Ayse Nurseli Sulumer, Esra Palabiyik, Bahri Avci, Handan Uguz, Yeliz Demir, Muhammet Serhat Ozaslan, Hakan Askin
Summary: The study found that bromelain has a protective effect on the activity of certain metabolic enzymes in the heart, kidney, and liver of rats with tyloxapol-induced hyperlipidemia, demonstrating its regulatory effect on tissues and enzyme activities.
BIOTECHNOLOGY AND APPLIED BIOCHEMISTRY
(2023)
Article
Biology
Ayse Varol, Seyda Albayrak, Hakan Ozkan, Yeliz Demir, Mesut Taskin, Ahmet Adiguzel
Summary: This study aimed to investigate the fibrinolytic enzyme-producing potentials of locally isolated soil bacteria and to purify and characterize the fibrinolytic enzyme of the most potent bacterial isolate. Among 40 isolates, the isolate V4 showed the highest potential. Based on 16S rRNA sequence analysis, the isolate V4 was identified as Bacillus atrophaeus. The optimal parameters for fibrinolytic enzyme production from B. atrophaeus were determined.
Article
Biochemistry & Molecular Biology
Erkan Oner, Yetkin Gok, Yeliz Demir, Tugba Taskin-Tok, Aydin Aktas, Ilhami Gulcin, Serap Yalin
Summary: This study presents the synthesis and characterization of a series of benzimidazolium salts, and investigates their enzyme inhibition abilities against acetylcholinesterase and carbonic anhydrase. The results show that these salts have potent inhibition effects. The pharmacokinetic properties of the compounds were also predicted.
CHEMISTRY & BIODIVERSITY
(2023)