A5045584552- Enzyme Structure and Function
- Protein Structure and Dynamics
- Biochemical and Molecular Research
- Biotin and Related Studies
- RNA and protein synthesis mechanisms
- HIV Research and Treatment
- RNA modifications and cancer
- HIV/AIDS drug development and treatment
- Microbial Metabolic Engineering and Bioproduction
- DNA and Nucleic Acid Chemistry
- Genomics and Chromatin Dynamics
- Metabolism, Diabetes, and Cancer
- Rare-earth and actinide compounds
- Click Chemistry and Applications
- Inorganic Chemistry and Materials
- Computational Drug Discovery Methods
- Magnetic Properties of Alloys
- Enzyme Catalysis and Immobilization
- RNA Research and Splicing
- Synthesis and Reactivity of Heterocycles
- Synthesis and biological activity
- thermodynamics and calorimetric analyses
- CO2 Reduction Techniques and Catalysts
- Metabolomics and Mass Spectrometry Studies
- Porphyrin Metabolism and Disorders
University of Cambridge
2023-2024
Koç University
2020-2024
Daegu Gyeongbuk Institute of Science and Technology
2024
Bridge University
2024
SLAC National Accelerator Laboratory
2021
Üsküdar University
2020
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...
X-ray crystallography is a robust and powerful structural biology technique that provides high-resolution atomic structures of biomacromolecules. Scientists use this to unravel mechanistic details biological macromolecules (e.g., proteins, nucleic acids, protein complexes, protein-nucleic acid or large compartments). Since its inception, single-crystal cryocrystallography has never been performed in Türkiye due the lack diffractometer. The diffraction facility recently established at...
Abstract High-resolution biomacromolecular structure determination is essential to better understand protein function and dynamics. Serial crystallography an emerging structural biology technique which has fundamental limitations due either sample volume requirements or immediate access the competitive X-ray beamtime. Obtaining a high of well-diffracting, sufficient-size crystals while mitigating radiation damage remains critical bottleneck serial crystallography. As alternative, we...
Abstract Multimeric protein assemblies are abundant in nature. Streptavidin is an attractive that provides a paradigm system to investigate the intra- and intermolecular interactions of multimeric complexes. Also, it offers versatile tool for biotechnological applications. Here, we present two apo-streptavidin structures, first one ambient temperature Serial Femtosecond X-ray crystal (Apo-SFX) structure at 1.7 Å resolution second cryogenic (Apo-Cryo) 1.1 resolution. These structures mostly...
Linker histones play an essential role in chromatin packaging by facilitating compaction of the 11-nm fiber nucleosomal "beads on a string." The result is heterogeneous condensed state with local properties that range from dynamic, irregular, and liquid-like to stable regular structures (the 30-nm fiber), which turn impact chromatin-dependent activities at fundamental level. depend type linker histone, particularly highly disordered C-terminal tail, most variable region protein, both between...
Oligomerization of Pr55
Abstract The ammonia-oxidizing thaumarchaeal 3-hydroxypropionate/4-hydroxybutyrate (3HP/4HB) cycle is one of the most energy-efficient CO 2 fixation cycles discovered thus far. protein encoded by Nmar_1308 (from Nitrosopumilus maritimus SCM1) a promiscuous enzyme that catalyzes two essential reactions within 3HP/4HB cycle, functioning as both crotonyl-CoA hydratase (CCAH) and 3-hydroxypropionyl-CoA dehydratase (3HPD). In performing activities, reduces total number enzymes necessary for in...
Abstract X-ray crystallography is a robust and powerful structural biology technique that provides high-resolution atomic structures of biomacromolecules. Scientists use this to unravel mechanistic details biological macromolecules (e.g. proteins, nucleic acids, protein complexes, protein-nucleic acid or large compartments). Since its inception, single-crystal cryo-crystallography has never been performed in Türkiye due the lack diffractometer. The diffraction facility recently established...
ABSTRACT High-resolution biomacromolecular structure determination is essential to better understand protein function and dynamics. Serial crystallography an emerging structural biology technique which has fundamental limitations due either sample volume requirements or immediate access the competitive X-ray beamtime. Obtaining a high of well-diffracting, sufficient-size crystals while mitigating radiation damage remains critical bottleneck serial crystallography. As alternative, we...
The treatment of insulin-dependent diabetes mellitus is characterized by artificial supplementation pancreatic β-cell ability to regulate sugar levels in the blood. Even though various insulin analogs are crucial for reasonable glycemic control, understanding dynamic mechanism may help improve best-protracted analog assist people with type 1 (T1D) live comfortably while maintaining tight control. Here, we present high-resolution crystal structure NN304, known as detemir, 1.7 Å resolution at...
Abstract Initiation factor 1 (IF1) is one of multiple key ligands involved in the initiation mRNA translation, a highly dynamic and carefully-orchestrated process. However, details surrounding IF1 transient interactions with small 30S ribosomal subunit remain incompletely understood despite characterization unbound fully-bound states. Improvements X-ray light sources crystallographic techniques are now enabling time-resolved structural studies at near-physiological temperature near-atomic...
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...
Abstract Frataxin is a 23 KDa mitochondrial iron-binding protein that involved in biogenesis of iron-sulfur clusters. A deficiency frataxin can lead to Friedreich's ataxia, progressive neurodegenerative disorder. The bacterial ortholog eukaryotic frataxin, CyaY, thought play role cluster assembly as an iron supplier, making it important target for study. Here, we present the first ambient temperature X-ray crystal structure CyaY from Escherichia coli , obtained using Turkish Light Source “...
The constant fragment (Fc) of the Immunoglobulin G1 (IgG1) subtype is increasingly recognized as a crucial scaffold in development advanced therapeutics due to its enhanced specificity, efficacy, and extended half-life. A prime example VEGF-Trap (Aflibercept), recombinant fusion protein that merges Fc region IgG1 with binding domains vascular endothelial growth factor receptors (VEGFR)-1 VEGFR-2. region's role N-glycosylation particularly important, it significantly influences stability. In...
Abstract Linker histones play an essential role in chromatin packaging by facilitating compaction of the 11-nm fibre nucleosomal “beads on a string”. The result is heterogeneous condensed state with local properties that range from dynamic, irregular and liquid-like, to stable regular structures (the 30-nm fibre), which turn impact chromatin-dependent activities at fundamental level. depend type linker histone, particularly highly disordered C-terminal tail, most variable region protein,...
ABSTRACT Multimeric protein assemblies are abundant in nature. Streptavidin is an attractive that provides a paradigm system to investigate the intra- and intermolecular interactions of multimeric complexes. Also, it offers versatile tool for biotechnological applications. Here, we present two apo-streptavidin structures, first one ambient temperature Serial Femtosecond X-ray crystal (Apo-SFX) structure at 1.7 Å resolution second cryogenic (Apo-Cryo) 1.1 resolution. These structures mostly...
Background: Adenosine A2A receptor (A2AR) is a G-protein-coupled that involved in various physiological functions. Zeatin, plant cytokinin and derivative of adenine, recently identified as new ligand A2AR. However, the ligand-receptor interaction mechanism not fully revealed. Aims Objectives: The main aim this study to reveal model structure A2AR complex with zeatin for first time provide better understanding novel mechanism. Materials Methods: was created by docking structural dynamics were...
ABSTRACT Ribosomes are the supramolecular complexes responsible for protein synthesis. The large 50S ribosomal subunit catalyzes peptidyl transferase reaction and peptide bond formation between amino acids. is targeted by many known clinically effective antibiotics. Available structures, obtained at cryogenic temperatures (CT), used drug discovery despite that active or important target sites may display a structural configuration CT-induced. introduction of ultrafast ultrabright X-ray free...
Aminoglycosides are antibiotics that cause translational misreading of mRNA by binding to the A-site in 30S ribosomal subunit [1].Together with importance clinic, there still missing details about their mode and structural dynamics on decoding center subunit.Sisomicin is a precursor structurally similar aminoglycoside antibiotic gentamicin involves five subtypes (C1, C1a, C2, C2a, C2b) [2].Each subtype displayed differences ototoxicity vitro.Within them, C2b detected as less ototoxic...
Abstract The treatment of insulin-dependent diabetes mellitus is characterized by artificial supplementation pancreatic β-cell ability to regulate sugar levels in the blood. Even though various insulin analogs are crucial for reasonable glycemic control, understanding dynamic mechanism may help improve best-protracted analog assist people with Type 1 Diabetes (T1D) live comfortably while maintaining tight control. Here we present high-resolution crystal structure NN304, known as detemir, 1.7...
The treatment of insulin-dependent diabetes mellitus is characterized by artificial supplementation pancreatic β-cell ability to regulate sugar levels in the blood. Even though various insulin analogs are crucial for reasonable glycemic control, understanding dynamic mechanism may help improve best-protracted analog assist people with Type 1 Diabetes (T1D) live comfortably while maintaining tight control. Here we present high-resolution crystal structure NN304, known as detemir, 1.7...
ABSTRACT HIV-1 continues to be a global health concern since AIDS was first recognized by the World Health Organization (WHO). It is estimated that there were 38 million people infected with and 1.5 deaths in 2019 alone. A better understanding of details HIV late-stage life cycle, involving Pr55 Gag attachment membrane for further oligomerization release virion, will provide us new avenues potential treatment. Inositol hexakisphosphate (IP6) an abundant endogenous cyclitol molecule its...
Abstract The ammonia-oxidizing thaumarchaeal 3-hydroxypropionate/4-hydroxybutyrate (3HP/4HB) cycle is one of the most energy-efficient CO 2 fixation cycles discovered thus far. protein encoded by Nmar_1308 (from Nitrosopumilus maritimus SCM1) a promiscuous enzyme that catalyzes two essential reactions within 3HP/4HB cycle, functioning as both crotonyl-CoA hydratase (CCAH) and 3- hydroxypropionyl-CoA dehydratase (3HPD). In performing activities, reduces total number enzymes necessary for in...