Article
Chemistry, Physical
Taejun Kim, Ju Hyun Yang, So Jeong Park, Huu-Quang Nguyen, Jeongkwon Kim, Ki-Ju Yee, Heesoo Jung, Jun-Gill Kang, Youngku Sohn
Summary: In this study, a dry-photodecontamination method was employed to treat CWNA model molecules contaminated on aluminum and oxidized aluminum, deepening the understanding of the photo-decomposition mechanism of CWNAs. The research also investigated the characterization of solid residues and electronic energy state calculation, providing new insights for the development and application of dry UV light photo-decontamination methods.
APPLIED CATALYSIS B-ENVIRONMENTAL
(2021)
Article
Chemistry, Multidisciplinary
Ri Wu, Lukas R. Benzenberg, Despoina Svingou, Renato Zenobi
Summary: The recent research discovered that copper ions (Cu(II)) can alter the conformation and function of the cyclic neuropeptide somatostatin (SST), leading to self-aggregation and loss of biological function as a neurotransmitter. However, the precise impact of Cu(II) ions on the structure and function of SST remains unclear. In this study, transition metal ion Fo''rster resonance energy transfer (tmFRET) and native ion mobility mass spectrometry (IM-MS) were used to investigate the structures of well-defined gas-phase ions of SST and octreotide (OCT). The results indicate that Cu(II) ions bind to two specific sites in both native-like SST and OCT ions, either near the disulfide bond or complexed by two aromatic residues. These binding sites can initiate aggregation of SST and affect the essential motif for receptor binding, impairing the biological function of SST and OCT when bound to SST receptors. The study demonstrates the capability of tmFRET to locate transition metal ion binding sites in neuropeptides and provides structural insights into the self-aggregation mechanisms and overall biological functions.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2023)
Article
Biochemistry & Molecular Biology
Avinash K. Thakur, Stephen E. Miller, Nicholas P. D. Liau, Sunhee Hwang, Simon Hansen, Felipe de Sousa e Melo, Jawahar Sudhamsu, Rami N. Hannoush
Summary: In this study, molecules that bind to the third fi-propeller domain of LRP6 were identified through directed evolution. These molecules can antagonize Wnt3a while potentiating Wnt1 signaling. The results revealed that the spatial orientation of the molecules influences their cellular activities and provide a theoretical basis for the development of peptide agonists that modulate cellular Wnt signaling.
ACS CHEMICAL BIOLOGY
(2023)
Article
Chemistry, Analytical
Tomos E. Morgan, Craig Jakes, Hendrik-Jan Brouwer, Silvia Millan-Martin, Jean-Pierre Chervet, Ken Cook, Sara Carillo, Jonathan Bones
Summary: This article presents an online electrochemical reduction method for reducing disulfide bonds in antibodies during liquid chromatography mass spectrometry analysis, eliminating the need for chemical reducing agents. By optimizing parameters such as electrochemical potential, temperature, and solvent content, complete disulfide bond cleavage can be achieved efficiently.
Article
Chemistry, Analytical
Eleanor Watts, Ross Thyer, Andrew D. Ellington, Jennifer S. Brodbelt
Summary: With the rapid development of new biotherapeutics, it is crucial to ensure consistent quality and understand degradation pathways. This study presents a comprehensive mass spectrometry approach to analyze the sequences and structures of selenoproteins, as well as discover unknown by-products.
ANALYTICAL CHEMISTRY
(2022)
Article
Chemistry, Multidisciplinary
Poonam Bhadoria, Manish Kumar Tripathi, Ramanathan Venkatnarayan
Summary: This study investigated the stability of cystine on nanocopper and its interaction with the copper surface. The results revealed that cystine chemisorbed on nanocopper through its disulfide and carboxyl functional groups, and the simulated Raman spectrum confirmed the cleavage of the disulfide bond.
JOURNAL OF NANOPARTICLE RESEARCH
(2023)
Article
Chemistry, Physical
Mehmand Khan, Jahangeer Patujo, Iram Mushtaq, Ayesha Ishtiaq, Muhammad Nawaz Tahir, Shabana Bibi, Muhammad Saad Khan, Naimat Ullah, Ghazala Mustafa, Bushra Mirza, Amin Badshah, Iram Murtaza
Summary: Four new thiourea derivatives were synthesized using multicomponent methodology. Among them, compound DM3A showed significant inhibitory activity against alpha-amylase and alpha-glucosidase. It also exhibited excellent antioxidant potential and negligible hemolytic activity.
JOURNAL OF MOLECULAR STRUCTURE
(2022)
Article
Chemistry, Physical
Kevin Chelius, Jacob H. Wat, Amala Phadkule, Mike Reppert
Summary: Amide I spectroscopy is commonly used to probe the structure of peptides and proteins; deuterated water provides a cleaner background but is not feasible for biological samples; there are differences in vibrational frequencies of amide I spectroscopy in different solvents.
JOURNAL OF CHEMICAL PHYSICS
(2021)
Review
Biochemistry & Molecular Biology
Jennifer Michelle Simien, Ellinor Haglund
Summary: The discovery of tangled proteins increased interest in uncovering biological functions and biophysical properties of complex topologies. The Pierced Lasso Topology (PLT) was recently discovered, representing 18% of disulfide containing proteins across all kingdoms of life. PLTs may act as molecular switches for protein function, impacting human health.
TRENDS IN BIOCHEMICAL SCIENCES
(2021)
Article
Engineering, Chemical
Zhanglin Lin, Yanyun Jing, Yuan Huang, Sha Yang, Shuyi Chen, Yingying Ou, Marco Pistolozzi, Xiaofeng Yang
Summary: This study provides a standardized method based on the cSAT scheme for the high-yield production of traditionally challenging disulfide bonded proteins and peptides. The method allows the proteins and peptides to correctly fold in an aggregated form during expression and enables high purity and high activity products through column purification.
CHEMICAL ENGINEERING SCIENCE
(2022)
Article
Chemistry, Organic
Marta Lubos, Lucie Mrazkova, Petra Gwozdiakova, Jan Picha, Milos Budesinsky, Jiri Jiracek, Jakub Kaminsky, Lenka Zakova
Summary: This study describes the synthesis, structures, and biological activities of six shortened analogues of human preptin. Stapled peptides with stabilized secondary structures were created by modifying the C-terminal part of preptin. The effect of these structural changes on calcium ion release was determined, and one of the analogues showed similar potency to the full-length preptin. These findings suggest the potential for designing new preptin analogues for diabetes and osteoporosis treatment.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2022)
Review
Chemistry, Multidisciplinary
Jessica S. Freitag, Christin Moeser, Robel Belay, Basma Altattan, Nico Grasse, Bhanu Kiran Pothineni, Jorg Schnauss, David M. Smith
Summary: In many applications, small peptide fragments are attractive alternatives to bulky proteins due to their ease of synthesis and numerous discovery methods. However, their activity is often negatively impacted by the lack of a rigid, 3D structure. Nano-templating using DNA nanotechnology and peptides has been used to enhance biological activity and design new functional materials.
Article
Microbiology
Eva Vogt, Lukas Sonderegger, Ying-Yu Chen, Tina Segessemann, Markus Kuenzler
Summary: Fungal peptides derived from KEPs have potential bioactivities and are of interest for drug development. This study provides the first detailed analysis of KEPs in a basidiomycete, showing their presence in different species of mushrooms and suggesting their role in fungal interactions with the environment and in mycelial growth and differentiation.
MICROBIOLOGY SPECTRUM
(2022)
Article
Biophysics
Oliver Nakano-Baker, Hanson Fong, Shalabh Shukla, Richard Lee, Le Cai, Dennis Godin, Tatum Hennig, Siddharth Rath, Igor Novosselov, Sami Dogan, Mehmet Sarikaya, Devin MacKenzie
Summary: Using simulated odorant-binding proteins (OBPs) and machine learning methods, a sensor array was designed to detect a characteristic VOC fingerprint associated with COVID-19. The sensor array directly transduces vapor composition into multi-channel electrical signals, allowing for rapid and non-invasive monitoring, disease diagnostics, and environmental exposure assessment. The use of chimeric VOC- and solid-binding peptides and carbon nanotube transistors demonstrated selective peptide binding and VOC sensing.
BIOSENSORS & BIOELECTRONICS
(2023)
Review
Chemistry, Multidisciplinary
Richard J. Spears, Cliona McMahon, Vijay Chudasama
Summary: The use of protecting groups for the cysteine thiol group has allowed for advancements in peptide and protein chemistry, enabling the synthesis of complex disulfide-rich peptides, protein semisynthesis, and labeling both in vitro and in vivo. Researchers have developed over 60 individual protecting groups for cysteine, showcasing their importance in peptide synthesis and protein science.
CHEMICAL SOCIETY REVIEWS
(2021)
Article
Biochemical Research Methods
Belen Hernandez, Fernando Pflueger, Sergei G. Kruglik, Mahmoud Ghomi
Summary: This article focuses on the structural dynamics of four trimers in an aqueous environment and evaluates the stability of their secondary structures using density functional theory calculations. The study demonstrates that the choice of functional affects the stability of intramolecular hydrogen bonds and conformational equilibrium in the trimers, while explicit hydration has a significant impact on the conformational landscapes of the peptides.
JOURNAL OF MOLECULAR GRAPHICS & MODELLING
(2021)
Article
Chemistry, Analytical
R. J. G. Rubira, L. N. Furini, C. J. L. Constantino, S. Sanchez-Cortes
Summary: This study successfully detected the herbicide prometryn at low concentrations using surface-enhanced Raman scattering, investigating its adsorption on metal surfaces and chemical changes under different pH conditions. Ultimately, quantitative analysis of prometryn was achieved at neutral and alkaline pH by optimizing its interaction with metal surfaces.
VIBRATIONAL SPECTROSCOPY
(2021)
Article
Multidisciplinary Sciences
F. Celis, C. Segura, J. S. Gomez-Jeria, M. Campos-Vallette, S. Sanchez-Cortes
Summary: SERS spectroscopy was used to analyze cochineal colorant in archaeological textiles from the Arica Region, revealing the presence of carminic acid and nucleobases. The study also explored the interaction of Al with biomolecules in cochineal extract, showing a strong interaction with guanine residue. Additionally, theoretical analysis on carminic acid interaction with a silver surface was conducted to better understand the SERS spectrum.
SCIENTIFIC REPORTS
(2021)
Article
Chemistry, Multidisciplinary
Eleonora Roschi, Cristina Gellini, Marilena Ricci, Santiago Sanchez-Cortes, Claudia Focardi, Bruno Neri, Juan Carlos Otero, Isabel Lopez-Tocon, Giulietta Smulevich, Maurizio Becucci
Summary: Silver nanoparticles functionalized with CD-SH were used for detecting bisphenols A, B, and S through SERS, with an improved sensitivity. Theoretical DFT calculations allowed for structural analysis of the CD-SH/BP complex, confirming an external interaction between hydroxyl groups of BPs and CD. Experimental evidence and testing supported the lack of actual inclusion of BPs inside the CD cavity. The SERS sensor and data analysis procedures were validated for detecting BPs in milk extracts.
Review
Biochemical Research Methods
Bordanaba-Florit Guillermo, Felix Royo, Sergei G. Kruglik, Juan M. Falcon-Perez
Summary: Understanding the heterogeneity of extracellular vesicles is crucial for unraveling their functions, but it also poses challenges for their application in medical diagnosis and therapies.
Article
Biochemistry & Molecular Biology
Michele Di Foggia, Vitaliano Tugnoli, Stefano Ottani, Monica Dettin, Annj Zamuner, Santiago Sanchez-Cortes, Daniele Cesini, Armida Torreggiani
Summary: The study investigated the systematic amino acid substitution effects on the interaction between oligopeptides and silver colloidal nanoparticles, revealing the unique properties of these self-assembling molecular systems. The findings showed that the positional arrangement of peptides affects their interaction with nanoparticles, with COO- groups providing the main peptide-nanoparticle interactions. Additionally, gamma irradiation resulted in a systematic decrease in the distance between aliphatic chains and colloid nanoparticles.
Article
Spectroscopy
Rafael J. G. Rubira, Sabrina A. Camacho, Carlos J. L. Constantino, Santiago Sanchez-Cortes
Summary: In this study, silver nanoparticles were utilized as SERS substrates to detect commercial samples of pesticides. The strong interaction between amino groups and oxygenated groups was confirmed to enhance the sensitivity of SERS detection.
JOURNAL OF RAMAN SPECTROSCOPY
(2022)
Article
Biochemistry & Molecular Biology
Alba Espina, Santiago Sanchez-Cortes, Zuzana Jurasekova
Summary: This work presents FT-Raman, FTIR, and SERS spectra of gallnut polyphenols tannic acid, gallic acid, pyrogallol, and syringic acid, aiming to compare the bands and identify specific marker features. Different functional groups and spatial distribution of these molecules lead to slight changes in vibrations. Raman spectra are dominated by ring vibrations, with strong influence from substituents. In contrast, FTIR spectra are dominated by oxygen-containing substituents and provide complementary information. SERS spectroscopy can be used to analyze trace amounts of these compounds, but the spectra show significant changes and indicate strong metal interactions.
Article
Spectroscopy
Rodrigo Sanchez-Gonzalez, Viviana Silva, Constanza Suazo, Juan Pablo Soto, Santiago Sanchez-Cortes, Marcelo Campos-Vallette, Patricio Leyton, Elizabeth Imbarack
Summary: This study investigated the adsorption and orientation of three dipyridinic derivatives on gold nanoparticles using SERS, showing that systematic modification in the shapes of the systems significantly affects the preferential orientation of the analytes on the gold surface. Additional data from UV-vis measurements and TEM images supported different aggregation mechanisms for the analytes, depending on their molecular shapes.
SPECTROCHIMICA ACTA PART A-MOLECULAR AND BIOMOLECULAR SPECTROSCOPY
(2022)
Article
Chemistry, Physical
Xuanyi Wu, Maria Vega Canamares, Ioanna Kakoulli, Santiago Sanchez-Cortes
Summary: This paper presents a novel chemical and molecular conformational analysis of the hallucinogenic agent bufotenine using surface-enhanced Raman scattering (SERS) and density functional theory (DFT). Low concentrations of bufotenine in acetonitrile solutions were analyzed using SERS and the vibrational characteristics of the molecule were verified through molecular dynamics simulations based on DFT. This integrated approach demonstrates the potential for rapid and accurate identification of controlled substances at trace amounts.
JOURNAL OF PHYSICAL CHEMISTRY LETTERS
(2022)
Article
Chemistry, Multidisciplinary
Alba Espina, Maria Vega Canamares, Zuzana Jurasekova, Santiago Sanchez-Cortes
Summary: This study reports a structural analysis of polyphenol complexes with iron and copper under different conditions, using various spectroscopic techniques and investigating fluorescence quenching. Interaction of polyphenols with iron results in color change and fluorescence quenching, facilitating Raman inspection of manuscripts.
Article
Chemistry, Physical
Camilo Florian, Yasser Fuentes-Edfuf, Evangelos Skoulas, Emmanuel Stratakis, Santiago Sanchez-Cortes, Javier Solis, Jan Siegel
Summary: This study investigates the fabrication of low spatial frequency LIPSS on commercially available steel using femtosecond lasers with varying pulse repetition rates. The morphology of laser-structured areas and redeposited debris was characterized, and a heat accumulation model was developed to identify ranges of repetition rates where heat accumulation occurs. Contact angle measurements with water demonstrated the influence of heat accumulation and debris on wetting behavior.
Article
Agronomy
Veronica Zuffi, Federico Puliga, Alessandra Zambonelli, Lorenzo Trincone, Santiago Sanchez-Cortes, Ornella Francioso
Summary: In recent decades, there has been a significant increase in studies on the utilization of agricultural by-products due to the focus on the circular economy. Mushroom cultivation has gained attention for its nutritional properties and adaptability. This project aims to connect two production chains by utilizing the solid anaerobic digestate fraction as a substrate for Pleurotus ostreatus cultivation. The results show that P. ostreatus can grow on both the conventional substrate and the substrate supplemented with digestate without reducing the mushroom harvest, and the addition of digestate even stimulates earlier and more homogeneous production.
Article
Chemistry, Multidisciplinary
Freddy Celis, Andres Aracena, Macarena Garcia, Rodrigo Segura del Rio, Santiago Sanchez-Cortes, Patricio Leyton
Summary: Silver nanoparticles were used to study the chemical behavior of thiacloprid interacting with the surface of silver nanospheres and nanostars. Experimental results showed structural changes in thiacloprid due to the deactivation of localized surface plasmon resonance. Theoretical calculations confirmed that the cleavage of the methylene bridge in thiacloprid was centered at the -CH2-bridge.
Article
Nanoscience & Nanotechnology
Adianez Garcia-Leis, Santiago Sanchez-Cortes
Summary: This study used plasmon-assisted effects to investigate the behavior of A beta(25-35) on silver nanoparticles, revealing the interaction mechanism between peptides and metals and providing valuable information on peptide secondary structure. The findings are crucial for designing plasmon-based nanoplatforms and have promising applications in Alzheimer's disease detection and treatment based on the bioaccumulation of toxic peptides on nanoparticles.
ACS APPLIED NANO MATERIALS
(2021)