Article
Biochemistry & Molecular Biology
Ryuichi Iwasaki, Tomohiro Bito, Atsushi Ishihara, Fumio Watanabe, Yukinori Yabuta
Summary: SAM and SAH are important biochemical intermediates, with SAM being the major methyl donor in vivo. The SAM to SAH ratio is a marker of methylation capacity. Stable isotope-labeled SAM and SAH are used to measure this ratio with high sensitivity. We focused on the SAHH of Pyrococcus horikoshii OT3 and prepared recombinant P. horikoshii SAHH to efficiently produce labeled SAH.
BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY
(2023)
Article
Chemistry, Analytical
Sara Knezevic, Milos Ognjanovic, Marija Gavrovic Jankulovic, Tatjana Durasinovic, Bratislav Antic, Sanja Vranjes Djuric, Dalibor M. Stankovic
Summary: A novel biosensor for detecting AdoHcy was developed using an impedimetric approach, with high sensitivity and a wide linear range. The stability of gallium oxyhydroxide crystal was enhanced by citric acid coating, and the optical, electrical, and physical anisotropy was eliminated using SWCNTs.
Article
Pharmacology & Pharmacy
Joyce Sweeney Gibbons, Sudip Khadka, Caroline G. Williams, Lin Wang, Stewart W. Schneller, Chong Liu, JoAnn M. Tufariello, Christopher F. Basler
Summary: 3-deazaneplanocin A (DzNep) and its 3-brominated analogs inhibit replication of several RNA viruses by targeting viral methyltransferases, impairing translation of viral transcripts. The compounds exhibit antiviral activity in nanomolar concentrations, with some enantiomers showing reduced inhibition of the target enzyme. A CL123-resistant mutant of VSV exhibited cross-resistance to neplanocin analogs, suggesting a common mechanism of action involving impairment of viral mRNA cap methylation.
ANTIVIRAL RESEARCH
(2021)
Article
Multidisciplinary Sciences
Dan Wu, Guanyu Zhu, Yufei Zhang, Yan Wu, Chunlei Zhang, Jiayi Shi, Xiaofeng Zhu, Xiaohuan Yuan
Summary: In this study, the cloning, expression, purification, and crystallization of Cbs2 from Saccharomyces cerevisiae were successfully conducted for structural studies. Analysis indicated that the Cbs2 protein may form a dimer. Preliminary X-ray crystallographic studies suggested the presence of two Cbs2 molecules in the asymmetric unit.
Review
Chemistry, Medicinal
Girish Chandra, Samridhi Patel, Manoj Panchal, Durg Vijay Singh
Summary: The parasite Plasmodium falciparum continuously challenges antimalarial drugs by changing itself, leading to a need for new drugs. One potential mechanism is to inhibit protein synthesis by targeting S-Adenosyl-L-homocysteine (SAH) hydrolase, which is responsible for methylation reactions and essential for parasite proliferation. Inhibitors of SAH hydrolase have the potential to treat various diseases by ultimately stopping protein synthesis.
MINI-REVIEWS IN MEDICINAL CHEMISTRY
(2021)
Article
Cell Biology
Takafumi Ogawa, Koji Masumura, Yuki Kohara, Muneyoshi Kanai, Tomoyoshi Soga, Yoshikazu Ohya, T. Keith Blackwell, Masaki Mizunuma
Summary: Methionine restriction can extend lifespan and delay aging-associated pathologies. Supplementation with S-adenosyl-L-homocysteine (SAH) can mimic the effects of methionine restriction by reducing methionine levels and activating AMP-activated protein kinase (AMPK), thereby extending lifespan.
Article
Multidisciplinary Sciences
Akane Mihara, Tomoyuki Ohara, Jun Hata, Sanmei Chen, Takanori Honda, Sonam Tamrakar, Akiko Isa, Dongmei Wang, Kuniyoshi Shimizu, Yoshinori Katakura, Koji Yonemoto, Tomohiro Nakao, Takanari Kitazono, Toshiharu Ninomiya
Summary: This study examined the association between serum levels of s-adenosylmethionine (SAM) and s-adenosylhomocysteine (SAH) (methionine metabolites) and the risk of dementia and death in older Japanese individuals. The findings suggest that the balance of methionine metabolites may play a role in the risk of dementia and death.
SCIENTIFIC REPORTS
(2022)
Article
Biochemistry & Molecular Biology
V. L. Filonov, M. A. Khomutov, A. V. Sergeev, A. L. Khandazhinskaya, S. N. Kochetkov, E. S. Gromova, A. R. Khomutov
Summary: Enzymatic methyltransferase reactions using AdoMet as the donor of methyl group are crucial for cell metabolism. In this study, phosphonous and phosphonic analogs of AdoMet and AdoHcy were investigated for their interactions with Dnmt3a, a DNA methyltransferase. The analogs were shown to be substrates of Dnmt3a, although their methylation efficiency was reduced compared to natural AdoMet. The phosphorus-containing analogs also exhibited inhibitory activities towards Dnmt3a, but to a lesser extent than AdoHcy. These findings suggest the potential use of the analogs for studying methyltransferases.
Article
Cardiac & Cardiovascular Systems
Zhixin Zhang, Lin Wang, Yu Zhan, Cui Xie, Yang Xiang, Dan Chen, You Wu
Summary: This study found that the levels of FGF23, SAH, Hcy, and Homer1 are significantly increased in patients with coronary heart disease, and the levels are higher with more severe disease. These indicators have certain reference value for the clinical diagnosis of coronary heart disease and the evaluation and monitoring of the disease.
BMC CARDIOVASCULAR DISORDERS
(2022)
Article
Engineering, Chemical
Lie-Ding Shiau, Po-Chun Wang
Summary: Stripping crystallization was used to purify S-2-phenylpropionic acid from enantiomer mixtures. The study determined a series of three-phase transformation conditions and investigated the experimental yield and purity of the final product.
INDUSTRIAL & ENGINEERING CHEMISTRY RESEARCH
(2022)
Article
Engineering, Chemical
Lie-Ding Shiau, Ming-Hong Hsu
Summary: Three-phase crystallization (TPC) is used to purify S-methyl-2-chloropropionate (S-M2CP) from liquid enantiomer mixtures with different initial concentrations. TPC combines melt crystallization and vaporization to obtain the desired crystalline solid and vapor mixture from the liquid feed. The three-phase states during TPC are calculated based on the thermodynamic properties of M2CP. A model is proposed to determine the variations of the masses of the remained liquid mixture, produced S-M2CP crystalline solid, and produced vapor mixture during the batch TPC operation. The experimental results are consistent with the model predictions in terms of the yield and purity of the final S-M2CP product obtained during TPC.
CHEMICAL ENGINEERING & TECHNOLOGY
(2023)
Article
Biochemical Research Methods
Piotr H. Malecki, Barbara Imiolczyk, Jakub Barciszewski, Justyna Czyrko-Horczak, Joanna Sliwiak, Magdalena Gawel, Katarzyna Wozniak, Mariusz Jaskolski, Krzysztof Brzezinski
Summary: The mesophilic cyanobacterium Synechocystis sp. PCC 6803 encodes an S-adenosyl-l-homocysteine hydrolase (SAHase) of archaeal origin in its genome. Unlike other bacterial SAHases, the activity and ligand binding of SynSAHase are not affected by specific alkali ions, and it exists in an equilibrium of dimeric and tetrameric forms in solution.
ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Jiaxin Mi, Xu Chen, You Yiran, Yi Tang, Qiannan Liu, Jinghe Xiao, Wenhua Ling
Summary: This study revealed that elevated intracellular S-adenosyl-homocysteine (SAH) levels can induce vascular smooth muscle cell (VSMCs) senescence, leading to vascular aging. Inhibition of SAH hydrolase (SAHH) can trigger VSMCs senescence and demethylation of CpG island in the NF-kappa B promoter, promoting the pro-inflammatory response in senescent cells.
JOURNAL OF NUTRITIONAL BIOCHEMISTRY
(2022)
Article
Engineering, Chemical
Yi Zhu, Li Ge, Lin Chen, Chen Chen, Yidan Wang, Kedi Yang
Summary: This study aimed to recycle S-valsartan by separating the R- and S-valsartan mixture, successfully achieving a purity of 99.1% and a recovery yield of 87.2% for S-valsartan. By employing DHAA as a chiral recognition agent, diastereomeric crystallization was utilized for the separation, optimizing parameters such as molar ratio and reaction temperature through Box-Behnken design and response surface methodology.
SEPARATION AND PURIFICATION TECHNOLOGY
(2022)
Article
Biochemical Research Methods
Daijiro Takeshita
Summary: The study focuses on the phosphorylation of eIF2 alpha by eIF2 alpha kinases and the inhibitory role of PK2 protein in this process. The structure and function of PK2 were characterized using recombinant protein expression and purification. The findings provide insights into the mechanism of eIF2 alpha kinase inhibition by PK2 and have implications for improving protein expression systems based on baculoviruses.
PROTEIN EXPRESSION AND PURIFICATION
(2023)
Article
Biochemistry & Molecular Biology
Anna Cociurovscaia, Grzegorz Bujacz, Agnieszka J. Pietrzyk-Brzezinska
Summary: CusS is a component of the Escherichia coli signal transduction system, involved in responding to excessive copper ions in the cell periplasm. Understanding bacterial copper sensing mechanisms is important for reducing copper resistance and developing copper-based materials with bactericidal properties.
JOURNAL OF STRUCTURAL BIOLOGY
(2022)
Article
Microbiology
Laura Dabos, Joanna E. Raczynska, Pierre Bogaerts, Agustin Zavala, Delphine Girlich, Remy A. Bonnin, Laurent Dortet, Aurelie Peyrat, Pascal Retailleau, Bogdan I. Iorga, Mariusz Jaskolski, Youri Glupczynski, Thierry Naas
Summary: OXA-48-producing Enterobacterales have disseminated globally, with several variants reported, differing by a few amino acid substitutions or deletions, mostly in the /35-/36 loop region. OXA-517, a natural variant of OXA-48, with an Arg214Lys substitution and a deletion in the β5-β6 loop, has the ability to hydrolyze extended-spectrum cephalosporins and carbapenems. This study highlights the remarkable ability of OXA-48-like carbapenemases to evolve through mutation/deletion in the β5-β6 loop to expand their hydrolysis spectrum.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
(2023)
Article
Biochemistry & Molecular Biology
Marta Ignasiak-Kciuk, Karolina Nowicka-Bauer, Marta Grzechowiak, Tina Ravnsborg, Kamil Frackowiak, Ole N. Jensen, Mariusz Jaskolski, Bronislaw Marciniak
Summary: This study investigates the sensitized photo-oxidation reaction using carboxybenzophenone (CB) as a sensitizer and a PR-10 protein (MtN13) as a quencher. It reveals the specific binding of CB in the protein's hydrophobic cavity and the amino acid residues creating adducts with the sensitizer. The study also elucidates the mechanisms of CB quenching and the influence of neighboring groups on the oxidation process.
FREE RADICAL BIOLOGY AND MEDICINE
(2023)
Article
Chemistry, Physical
Andrii Pyrih, Andrzej Lapinski, Sylwia Ziebab, Roman Lesyk, Mariusz Jaskolski, Andrzej K. Gzella
Summary: New compounds, 5-dimethylaminomethylidene-4-phenylamino-1,3-thiazol-2(5H)-one and 5-methoxycarbonylmethylidene-4-phenylamino-1,3-thiazol-2(5H)-one, were synthesized and studied. Their crystal structure, chemical environment, and intermolecular interactions were analyzed using various methods, including X-ray diffraction, NMR, and FT-IR spectroscopy. The compounds exhibited amine tautomeric form in both solution and solid state, and the molecular interactions were investigated with a focus on stereoisomerism and proton tautomerism. The conformational analysis revealed the preferred coplanar arrangement of the thiazolin-2-one and phenyl systems.
JOURNAL OF MOLECULAR STRUCTURE
(2023)
Article
Plant Sciences
Malgorzata Marszalek-Zenczak, Anastasiia Satyr, Pawel Wojciechowski, Michal Zenczak, Paula Sobieszczanska, Krzysztof Brzezinski, Tetiana Iefimenko, Marek Figlerowicz, Agnieszka Zmienko
Summary: Metabolic gene clusters (MGCs) are groups of genes involved in a common biosynthetic pathway. They can lead to intraspecies variation and cause phenotypic diversity. The study examined copy number variations (CNVs) in four Arabidopsis thaliana MGCs and found that different gene clusters displayed varying levels of diversity and conservation. The study identified a large genomic insertion containing divergent duplicates of specific genes and discovered gene expression alterations and phenotypic differences associated with these duplications.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Biochemical Research Methods
Pawel Drozdzal, Tomasz Manszewski, Miroslaw Gilski, Krzysztof Brzezinski, Mariusz Jaskolski
Summary: The self-complementary L-d(CGCGCG)(2) hexanucleotide, which contains the enantiomeric 2'-deoxy-L-ribose, forms a right-handed Z-DNA duplex when crystallized in complex with cadaverine and potassium cations. The ultrahigh-resolution crystal structure at 0.69 angstrom resolution confirmed the right-handed structure. Mistakenly assuming the presence of 2'-deoxy-D-ribose, the X-ray diffraction data revealed the wrong hand of the structure due to the weak anomalous signal of P and K atoms. The crystal structure also showed the interaction of the cadaverinium dication and K+ cation with the Z-DNA duplex.
ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Maciej Janicki, Anna Sciuk, Andrzej Zielezinski, Milosz Ruszkowski, Agnieszka Ludwikow, Wojciech M. Karlowski, Mariusz Jaskolski, Joanna I. Loch
Summary: We designed and produced five new variants of the EcAIII enzyme through a nature-inspired mutagenesis approach. These modified proteins were characterized using spectroscopic and crystallographic methods, confirming their enzymatic activity. The crystal structures of the variants revealed new conformational states and allowed observation of an acyl-enzyme intermediate. Moreover, we used computational methods to study how mutations at the M200 residue affect the active site and substrate binding mode of selected bacterial orthologs.
Article
Chemistry, Multidisciplinary
Andrii Pyrih, Andrzej Lapinski, Sylwia Zieba, Adam Mizera, Roman Lesyk, Mariusz Jaskolski, Andrzej K. Gzella
Summary: Three new derivatives of 5-dimethylaminomethylidene-4-phenylamino-1,3-thiazol-2(5H)-one were synthesized and their prototropic tautomerism was studied. The compounds were found to exist solely in the amino tautomeric form in both solid and liquid phases. The electronic effects, molecular conformation, and intermolecular interactions in the crystals were analyzed.
ACTA CRYSTALLOGRAPHICA SECTION B-STRUCTURAL SCIENCE CRYSTAL ENGINEERING AND MATERIALS
(2023)
Article
Plant Sciences
Marta Grzechowiak, Joanna Sliwiak, Mariusz Jaskolski, Milosz Ruszkowski
Summary: Glutamate dehydrogenase (GDH) is an enzyme that plays a crucial role in the nitrogen and carbon metabolism of plants. This study focuses on AtGDH2, one of the three isoforms found in Arabidopsis thaliana. The researchers discovered that the calcium binding site in AtGDH2 is different from what was previously predicted, suggesting a structural rather than catalytic role. Comparative analysis of AtGDH1 and AtGDH2 showed similar behavior, with calcium having only a minor effect. However, gene expression profiles indicate that AtGDH2 is the most prevalent isoform.
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2023)
Article
Multidisciplinary Sciences
Agnieszka Hryniewicka, Joanna Breczko, Gabriela Siemiaszko, Anthony N. Papathanassiou, Kinga Gora-Marek, Karolina A. Tarach, Krzysztof Brzezinski, Anna Ilnicka, Artur P. Terzyk, Karolina H. Markiewicz, Luis Echegoyen, Marta E. Plonska-Brzezinska
Summary: Covalent triazine-based frameworks have received significant attention recently due to their high surface area and excellent thermal and electrochemical stabilities. This study demonstrates that immobilizing triazine-based structures on carbon nanostructures results in the formation of micro- and mesopores in a three-dimensional manner. The combination of spherical carbon nanostructures and the triazine framework leads to a material with unique physicochemical properties and the highest specific capacitance value in aqueous acidic solutions. This hybrid system shows promise for electrochemical applications.
SCIENTIFIC REPORTS
(2023)
Article
Chemistry, Multidisciplinary
Andrii Pyrih, Andrzej Lapinski, Sylwia Zieba, Adam Mizera, Roman Lesyk, Andrzej K. Gzella, Mariusz Jaskolski
Summary: In this study, two derivatives were synthesized to investigate the structural changes associated with proton tautomerism of the amidine system. The results showed that the studied compounds exist in the amine tautomeric form in both solid and liquid states.
ACTA CRYSTALLOGRAPHICA SECTION C-STRUCTURAL CHEMISTRY
(2023)
Article
Biochemical Research Methods
Joanna I. Loch, Paulina Worsztynowicz, Joanna Sliwiak, Marta Grzechowiak, Barbara Imiolczyk, Kinga Pokrywka, Mateusz Chwastyk, Miroslaw Gilski, Mariusz Jaskolski
Summary: The genome of Rhizobium etli encodes two L-asparaginases, ReAIV and ReAV, with no similarity to well-characterized enzymes. Despite low sequence identity, ReAIV and ReAV are hypothesized to belong to the same structural class 3. Crystal structures of ReAIV confirm its similarity to ReAV but with important differences, such as peculiar hydration patterns and three internal cavities. The structures of ReAIV may provide a basis for future enzyme-engineering experiments.
ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY
(2023)
Article
Materials Science, Multidisciplinary
Agnieszka Hryniewicka, Joanna Breczko, Gabriela Siemiaszko, Krzysztof Brzezinski, Anna Ilnicka, Artur P. Terzyk, Marta E. Plonska-Brzezinska
Summary: Covalent triazine frameworks (CTFs) are a promising class of high-performance materials due to their porosity and structural control at the molecular or atomic level. However, their use as supercapacitor electrodes is limited by low electrical conductivity and stacking effect. This study successfully synthesized hybrid carbon nano-onion-based CTFs, which exhibited significantly higher specific capacitance values compared to reference CTFs. This strategy expands the scope and application of CTFs as electrode materials for electrochemical energy storage systems.
MATERIALS ADVANCES
(2023)
Article
Chemistry, Physical
Andrii Pyrih, Andrzej Lapinski, Sylwia Zieba, Adam Mizera, Roman Lesyk, Andrzej K. Gzella, Mariusz Jaskolski
Summary: In this article, we reported the recent findings of our systematic studies on the effects of phenyl-ring substituents on proton tautomerism and stereoisomerism in 4-phenylamino-1,3-thiazol-2(5H)-one derivatives. Through synthesis, spectral analysis, and crystal studies, we found that these compounds exist solely in the amino tautomeric form and exhibit a specific arrangement.
JOURNAL OF MOLECULAR STRUCTURE
(2024)
