Synchrotron radiolysis generates hydroxyl radicals (OH) that are successful footprinting reagents. Here, we describe a new reagent for the synchrotron platform, the trifluoromethyl radical (CF). The radical is produced by OH displacement of CF from sodium triflinate (Langlois reagent). Upon X-ray beam exposure, the reagent labels proteins extensively without any additional chemicals on a millisecond or shorter time scale. The CF is comparably reactive to OH and produces footprinting information that complements that of OH alone. This reagent in combination with OH should enable novel chemistry for protein footprinting on the synchrotron platform.
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http://dx.doi.org/10.1021/jasms.0c00085 | DOI Listing |
Front Microbiol
January 2025
Department of Clinical Laboratory, Children's Hospital of Chongqing Medical University, National Clinical Research Center for Child Health and Disorders, Ministry of Education Key Laboratory of Child Development and Disorders and Chongqing Key Laboratory of Pediatric Metabolism and Inflammatory Diseases, Chongqing, China.
capsular polysaccharide (CPS) is a crucial virulence factor for this pathogenic bacterium and is partially under transcriptional control. In this study, we used electrophoretic mobility shift assays and DNA enzyme footprinting to identified the hypothetical protein SPD_0410 as a negative regulator of locus. Our results showed that the D39Δ mutant strain exhibited significantly elevated CPS levels compared to the parental strain D39s.
View Article and Find Full Text PDFChem Res Toxicol
January 2025
Department of Biomedical and Pharmaceutical Sciences, College of Pharmacy, University of Rhode Island, Kingston, Rhode Island 02881, United States.
Nucleotide excision repair is a crucial cellular mechanism that ensures genomic stability, thereby preventing mutations that can lead to cancer. The human XPC and its yeast ortholog Rad4 protein complexes are central to this process and were the focus of the study. We used surface plasmon resonance and differential scanning fluorimetry to study the binding characteristics of XPC and Rad4 when bound to the bulky cluster di-FAAF-containing 55-mer duplex DNA.
View Article and Find Full Text PDFInt J Biol Macromol
January 2025
School of Biomedical and Pharmaceutical Sciences, Guangdong University of Technology, Guangzhou 510006, China; Smart Medical Innovation Technology Center, Guangdong University of Technology, Guangzhou 510006, China. Electronic address:
G-quadruplexes (G4s) are non-canonical nucleic acid secondary structures formed by guanine-rich DNA or RNA sequences. These structures play pivotal roles in cellular processes, including DNA replication, transcription, RNA splicing, and protein translation. High-throughput sequencing has significantly advanced the study of G4s by enabling genome-wide mapping and detailed characterization.
View Article and Find Full Text PDFInt J Microbiol
January 2025
Laboratory of Animal Hygiene, School of Veterinary Medicine, Kitasato University, Higashi 23-35-1, Towada Aomori 034-8628, Japan.
-a facultative intracellular pathogen of macrophages-causes bronchopneumonia in foals and patients who are immunocompromised. Virulent strains of possess a virulence-associated plasmid, which encodes a 15- to 17-kDa surface protein called virulence-associated protein A (VapA). VapA expression is regulated by temperature and pH.
View Article and Find Full Text PDFArch Microbiol
January 2025
Department of Critical Care Medicine, Affiliated Hospital of North Sichuan Medical College, Nanchong, Sichuan, 637000, PR China.
Vibrio parahaemolyticus propels itself through liquids using a polar flagellum and efficiently swarms across surfaces or viscous environments with the aid of lateral flagella. H-NS plays a negative role in the swarming motility of V. parahaemolyticus by directly repressing the transcription of the lateral flagellin gene lafA.
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