A5075207452- Enzyme Structure and Function
- Protein Structure and Dynamics
- Essential Oils and Antimicrobial Activity
- Bee Products Chemical Analysis
- Computational Drug Discovery Methods
- Insect and Pesticide Research
- Organometallic Complex Synthesis and Catalysis
- Viral Infections and Vectors
- Advanced Electron Microscopy Techniques and Applications
- Metalloenzymes and iron-sulfur proteins
- Mosquito-borne diseases and control
- Bacterial Identification and Susceptibility Testing
- Fire effects on ecosystems
- thermodynamics and calorimetric analyses
- Meat and Animal Product Quality
- Viral Infections and Outbreaks Research
- Vitamin C and Antioxidants Research
- Glycosylation and Glycoproteins Research
- Probiotics and Fermented Foods
- Chemical Synthesis and Characterization
- Metabolomics and Mass Spectrometry Studies
- X-ray Spectroscopy and Fluorescence Analysis
- SARS-CoV-2 and COVID-19 Research
- RNA modifications and cancer
Koç University
2020-2024
The COVID-19 pandemic has resulted in 198 million reported infections and more than 4 deaths as of July 2021 (covid19.who.int). Research to identify effective therapies for includes: (1) designing a vaccine future protection; (2) de novo drug discovery; (3) identifying existing drugs repurpose them immediate treatments. To assist repurposing design, we determine two apo structures severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) main protease at ambient temperature by serial...
The SARS-CoV-2 main protease of (Mpro) is an important target for related drug repurposing and development studies. Here, we describe the steps structural characterization Mpro, starting from plasmid preparation protein purification. We detail crystallization using sitting drop, microbatch (under oil) approach. Finally, cover data collection structure determination serial femtosecond crystallography. For complete details on use execution this protocol, please refer to Durdagi et al. (2021).
Since early 2020, COVID-19 has grown to affect the lives of billions globally. A worldwide investigation been ongoing for characterizing virus and also finding an effective drug developing vaccines. As time essence, a crucial part this research repurposing; therefore, confirmation in silico screening studies have carried out purpose. Here we demonstrated possibility variety drugs efficiently by leveraging high data collection rate 120 images/second with new low-noise, dynamic range ePix10k2M...
Milk is one of the primary animal-based foods in a healthy diet which provides vitamins, fats and particularly calcium to meet daily requirements. Currently, there are limited number metabolomics studies on milk more required establish reliable international standards databases for metabolite profiles. In this study, analysis three types UHT whole-milk, semi-skimmed lactose-free from Türkiye was investigated by NMR, with emphasis differences concentrations related lactose energy metabolism....
Abstract The COVID19 pandemic has resulted in 25+ million reported infections and nearly 850.000 deaths. Research to identify effective therapies for includes: i) designing a vaccine as future protection; ii) structure-based drug design; iii) identifying existing drugs repurpose them immediate treatments. To assist repurposing design, we determined two apo structures of Severe Acute Respiratory Syndrome CoronaVirus-2 main protease at ambienttemperature by Serial Femtosecond X-ray...
Small angle X-ray Scattering (SAXS) is a method for determining basic structural characteristics such as the size, shape, and surface of particles. SAXS data can be used to generate low resolution models biomolecules faster than any other conventional experimental biology tool. mostly collected in synchrotron facilities obtain best scattering possible however home source devices also valuable when properly optimized. Here, we examined sample collection optimization at beamline terms...
Interferon-stimulated gene-15 (ISG15) is an interferon-induced protein with two ubiquitin-like (Ubl) domains linked by a short peptide chain and conjugated of the ISGylation system. Similar to ubiquitin other Ubls, ISG15 ligated its target proteins through series E1, E2, E3 enzymes known as Uba7, Ube2L6/UbcH8, HERC5, respectively. Ube2L6/UbcH8 plays central role in ISGylation, underscoring it important drug for boosting innate antiviral immunity. Depending on type ultimate protein, E2 have...
SUMMARY Crimean-Congo Hemorrhagic Fever (CCHF) is a severe tick-borne viral disease with high mortality rates and significant public health implications. Despite its global prevalence, the mechanisms underlying pathogenesis remain poorly understood, effective diagnostic therapeutic tools are limited. Metabolomics, as powerful tool for exploring host-pathogen interactions, offers promising avenue identifying biomarkers elucidating mechanisms. In this study, we investigated metabolic...
ABSTRACT Interferon-stimulated gene-15 (ISG15) is an interferon-induced protein with two ubiquitin-like (Ubl) domains linked by a short peptide chain, and the conjugated of ISGylation system. Similar to ubiquitin other Ubls, ISG15 ligated its target proteins through series E1, E2, E3 enzymes known as Uba7, Ube2L6/UbcH8, HERC5, respectively. Ube2L6/UbcH8 plays literal central role in ISGylation, underscoring it important drug for boosting innate antiviral immunity. Depending on type ultimate...
The application of metabolomics for studying modifications in host metabolism due to viral infections has proven be a game-changing approach. Prior our study, only one other ‘omics’ study been carried out that investigates the interplay between and CCHFV its subsequent pathogenesis. We employed NMR spectroscopy, given advantages terms reproducibility, minimal sample preparation, capability analyze complex biofluids. Our methodology builds upon success research hemorrhagic fevers such as...
Honey is a viscous solution produced by bees through the enzymatic transformation of nectar from flowers, containing complex mixture carbohydrates, organic acids, enzymes, and other minor constituents. Assessment honey quality authenticity has become essential to ensure consumer confidence regional perverse practice authentic production. In this study, we employed NMR spectroscopy chemometric analysis characterize Turkish Pine compare it flower originating Oceania, Aegean, West Coast North...
Abstract Honey is a viscous, supersaturated sugar solution produced by bees through the enzymatic transformation of nectar from flowers, containing complex mixture carbohydrates, organic acids, enzymes, and other minor constituents. Although honey has been used for thousands years its nutritional medicinal properties, it subject increasing attention in recent due to adulterated production. Consequently, assessment quality authenticity become essential ensure consumer confidence regional...
Abstract Small angle X-ray Scattering (SAXS) is a method for determining basic structural characteristics such as size, shape, and surface of particles. SAXS can generate low resolution models biomolecules faster than any other conventional biology tools. data mostly collected in synchrotron facilities to obtain the best scattering possible however home source devices also valuable when optimized properly. Here, we examined sample collection optimization at beamline terms concentration,...
Abstract Since early 2020, COVID-19 has grown to affect the lives of billions globally. A worldwide investigation been ongoing for characterizing virus and also finding an effective drug developing vaccines. As time essence, a crucial part this research repurposing; therefore, confirmation in-silico screening studies carried out purpose. Here we demonstrated possibility variety drugs efficiently by leveraging high data collection rate 120 images/second with new low-noise, dynamic range...