Intact Monomer Research Articles

Coordination of ε-Caprolactone to a Cationic Niobium(V) Alkoxide Complex: Fundamental Insight into Ring-Opening Polymerization via Coordination-Insertion.

We report three niobium-based initiators for the catalytic ring-opening polymerization (ROP) of ε-caprolactone, exhibiting good activity and molecular weight control. In particular, we have prepared on the gram-scale and fully characterized a monometallic cationic alkoxo-Nb(V) ε-caprolactone adduct representing, to the best of our knowledge, an unprecedented example of a metal complex with an intact lactone monomer and a functional ROP-initiating group simultaneously coordinated at the metal center. At 80 °C, all three systems initiate the immortal solution-state ROP of ε-caprolactone via a coordination-insertion mechanism, which has been confirmed through experimental studies, and is supported by computational data. Natural bond orbital calculations further indicate that polymerization may necessitate isomerization about the metal center between the alkoxide chain and the coordinated monomer. The observations made in this work are expected to inform mechanistic understanding both of amine tris(phenolate)-supported metal alkoxide ROP initiators, including various highly stereoselective systems for the polymerization of lactides and of coordination-insertion-type ROP protocols more broadly.

Extrachromosomal Amplification of Human Papillomavirus Episomes Is a Mechanism of Cervical Carcinogenesis.

Multimers of the HPV genome are generated in cervical tumors replicating as extrachromosomal episomes, which is associated with deletion and rearrangement of the HPV genome and provides a mechanism for oncogenesis without integration.

Logistic Regression Analysis of LC-MS/MS Data of Monomers Eluted from Aged Dental Composites: A Supervised Machine-Learning Approach.

Compound identification by database searching that matches experimental with library mass spectra is commonly used in mass spectrometric (MS) data analysis. Vendor software often outputs scores that represent the quality of each spectral match for the identified compounds. However, software-generated identification results can differ drastically depending on the initial search parameters. Machine learning is applied here to provide a statistical evaluation of software-generated compound identification results from experimental tandem MS data. This task was accomplished using the logistic regression algorithm to assign an identification probability value to each identified compound. Logistic regression is usually used for classification, but here it is used to generate identification probabilities without setting a threshold for classification. Liquid chromatography coupled with quadrupole-time-of-flight tandem MS was used to analyze the organic monomers leached from resin-based dental composites in a simulated oral environment. The collected tandem MS data were processed with vendor software, followed by statistical evaluation of these results using logistic regression. The assigned identification probability to each compound provides more confidence in identification beyond solely by database matching. A total of 21 distinct monomers were identified among all samples, including five intact monomers and chemical degradation products of bisphenol A glycidyl methacrylate (BisGMA), oligomers of bisphenol-A ethoxylate methacrylate (BisEMA), triethylene glycol dimethacrylate (TEGDMA), and urethane dimethacrylate (UDMA). The logistic regression model can be used to evaluate any database-matched liquid chromatography-tandem MS result by training a new model using analytical standards of compounds present in a chosen database and then generating identification probabilities for candidates from unknown data using the new model.

Physicochemical stability of durvalumab (Imfinzi®) concentrate for solution in original vials after first opening

Abstract Objectives Durvalumab (Imfinzi®), a PD-L1 monoclonal antibody (mAb) medication is available as concentrate (50 mg/mL) for solution for infusion. The summary of product characteristics provides information about the physicochemical stability of ready-to-administer durvalumab preparations (vehicle solution 0.9 % NaCl, G5%), but not about the concentrate after first opening. The objective of this study was to determine the physicochemical stability of durvalumab concentrate for solution after first opening over a period of 28 days. Methods Imfinzi® vials were punctured and stored refrigerated (2–8 °C) or at room temperature (20–25 °C) light protected. At predefined time points (day 0, 7, 14, 21, 28) the physicochemical stability of the concentrated solution was determined by ion-exchange/size-exclusion high-performance liquid chromatography (IE-/SE-HPLC) with photodiode array detection and pH measurement. Vials were inspected with regard to changes of color, clarity, and visible particles at any time point. Results Regardless of the storage temperature, durvalumab 50 mg/mL solutions remained physiochemically stable for 28 days in punctured vials. The concentrations of durvalumab monomer remained unchanged and no secondary peaks (fragments, aggregates) were observed in any of the SE-HPLC chromatograms. The IE-HPLC test results showed no substantial changes of the peak areas of the main peak and of the acidic and basic charge variants during the whole storage period. Appearance and pH of the test solutions remained unchanged until the end of the study. Conclusions Regardless of storage conditions none of the analytical methods indicated physicochemical instability of the intact durvalumab monomer over the 28 days of the study. To avoid microbiological instability storage under refrigeration is recommended.

Clusters of Fullerenes: Structures and Dynamics.

The geometric structures and reaction dynamics of clusters of carbon fullerene molecules are reviewed. The topics on structure cover the elementary building blocks, the interatomic and intermolecular potentials, and the geometric structures of the aggregates. The dynamics part describes the time development after excitation with laser light, in bimolecular collisions, and in collisions with high energy atomic ions. These reactions produce singly or multiply charged clusters, fragmented or intact fullerene monomers, and fusion products. The duration of the interaction time and the transferred energy are found to play determining roles for the nature of the products. Short interaction times and high energy excitation favor intramolecular reactions on excited potential energy surfaces, producing fused products, often with a strong release of the combined excess energy and heat of fusion. Clusters excited at low energies tend to disintegrate into intact fullerene molecules.

Oligomerization of an ansa-ferrocene with pyrazabole bridge

ansa-Ferrocenes with pyrazabole bridges are chemically robust entities and therefore suitable building blocks for the synthesis of rigid-rod polymers that combine redox-active Fe(II) centers and beltene-like π faces. The specific monomers we developed bear OEt groups at both tetracoordinated boron atoms (for solubility reasons) and ethynyl substituents at the 4-positions of the two pyrazole rings. Polymerization was accomplished by a condensation reaction with 1,4-diiodobenzene using a Sonogashira–Hagihara-type protocol. As a result, oligomers with a number-average molecular weight of Mn = 7.6 kDa and dispersity of Ð = 1.55 were obtained, suggesting an average chain length of about 14 repeating units based on gel permeation chromatography analysis in THF relative to narrow polystyrene standards. The molecular weight determination was complemented by MALDI-TOF mass spectrometry and (heteronuclear) NMR spectroscopy to verify the intact pyrazabole monomer repeat units and the nature of the end groups. The oligomers were further characterized by UV–vis spectroscopy and cyclic voltammetry, which demonstrated the successful synthesis of a new class of redox-active materials.

Selective reversed-phase high-performance liquid chromatography method for the determination of intact SARS-CoV-2 spike protein

Protein-based vaccines are playing an increasingly important role in the COVID-19 pandemic. As late-stage clinical data are finalized and released, the number of protein-based vaccines expected to enter the market will increase significantly. Most protein-based COVID-19 vaccines are based on the SARS-CoV-2 spike protein (S-protein), which plays a major role in viral attachment to human cells and infection. As a result, in order to develop and manufacture quality vaccines consistently, it is imperative to have access to selective and efficient methods for the bioanalytical assessment of S-protein. In this study, samples of recombinant S-protein (hexS-protein) and commercial S-protein were used to develop a selective reversed-phase HPLC (RP-HPLC) method that enabled elution of the intact S-protein monomer as a single peak on a wide pore, C8-bonded chromatographic column. The S-protein subunits, S1 and S2 subunits, were clearly separated from intact S-protein and identified. The results of this study set the foundation for reversed-phase HPLC method development and analysis for selective and efficient separation of S-protein monomer from its subunits.

Fibers cluster characterization in failure process of composite materials

This paper is target to investigate numerically failure process in composite materials by studying intact fiber monomer density and mean elongation fibers versus different parameters: applied load, temperature and matrix - fibers interaction. Hence, our research is realized in the framework of fiber bundle models (FBM) by considering the local load sharing mode (LLS). The obtained results show that the intact fiber monomer density increases with time to reach a maximum value at cross-over time, and then it decreases to zero value when the material fails totally. However, the maximal value of the intact fiber monomer density exhibits two opposite behavior for low and height applied load regimes. It increases in the first regime, but it decreases in the second one. This result shows that in the first regime, the crack is affected only to small cluster fibers with discontinued process, but in the second one, the crack is affected to big cluster fibers with continued process. The cross-over time corresponding to the above maximal value, increases with the load in the low regime applied load, but it decreases in the height applied load one. However, this cross-over time decreases with temperature with two different profiles and increases exponentially with the matrix-fibers interaction. In the additional, the mean elongation fiber presents two different stages. In the first one, at earlier time, it increases until reaching a maximal value, and then it decreases at an intermediate stage when the fibers sustain a self-organization criticality. Finally it continues to increase until a final crack stage. Moreover, the intermediate stage duration decreases with two different profiles versus both applied load and temperature system. But, it increases exponentially with the increasing matrix-fibers interaction.

Impact of hydrothermal treatment on denaturation and aggregation of water-extractable quinoa (Chenopodium quinoa Willd.) protein

The extent of hydrothermally induced denaturation and aggregation of native quinoa protein depends on the process conditions. Proteins in quinoa extracts containing water-extractable albumins and dilute salt-extractable globulins aggregate when heated at pH 5.0 to 7.0. An I-optimal experimental design was used to investigate the impact of heating temperature (45–100 °C), time (1–15 min), pH (5.0–7.0) and protein content (25.0–100.0 mg/ml) on the total and covalent aggregation of aqueous quinoa extracts. These were evaluated by determining protein solubility losses in water and a sodium dodecyl sulfate containing medium, respectively, using size separation chromatography. Both protein solubility loss types were independent of the protein content during the treatment. While heating time only had an impact on the intensity of protein aggregation, temperature and pH also influenced the type of aggregates formed. Non-covalent protein aggregation was important when heating at temperatures not exceeding 70 °C and when the pH was close to the iso-electric point (pH 5.0). Covalent protein aggregation was maximal (ca. 25%) after heating 15 min at 100 °C and pH 7.0. Under these conditions, oligomeric protein structures (ca. 100–500 kDa) had been formed already after 1 min of heating which further had polymerized to larger ones (>500 kDa) after 5 min of heating. Mainly 7S and 11S globulins aggregated (predominantly by disulfide cross-links), while 2S albumins were not involved in covalent protein aggregation. Furthermore, intact 11S globulin monomers were most prone to covalently aggregate. The new insights allow tailoring quinoa protein aggregation by adjusting the hydrothermal treatment conditions.

Evidence of conformational landscape alteration and macromolecular complex formation in the early stages of in vitro human prion protein oxidation

Oxidative stress is proposed to be one of the major causes of neurodegenerative diseases. Cellular prion protein (PrP) oxidation has been widely studied using chemical reagents such as hydrogen peroxide. However, the experimental conditions used do not faithfully reflect the physiological environment of the cell. With the goal to explore the conformational landscape of PrP under oxidative stress, we conducted a set of experiments combining the careful control of the nature and the amount of ROS produced by a60Co γ-irradiation source. Characterization of the resulting protein species was achieved using a set of analytical techniques. Under our experimental condition hydroxyl radical are the main reactive species produced. The most important findings are i) the formation of molecular assemblies under oxidative stress, ii) the detection of a majority of unmodified monomer mixed with oxidized monomers in these molecular assemblies at low hydroxyl radical concentration, iii) the absence of significant oxidation on the monomer fraction after irradiation. Molecular assemblies are produced in small amounts and were shown to be an octamer. These results suggest either i) an active recruitment of intact monomers by molecular assemblies’ oxidized monomers then inducing a structural change of their intact counterparts or ii) an intrinsic capability of intact monomer conformers to spontaneously associate to form stable molecular assemblies when oxidized monomers are present. Finally, abundances of the intact monomer conformers after irradiation were modified. This suggests that monomers of the molecular assemblies exchange structural information with intact irradiated monomer. All these results shed a new light on structural exchange information between PrP monomers under oxidative stress.

Structural Evolution of Water on ZnO(10 0): From Isolated Monomers via Anisotropic H-Bonded 2D and 3D Structures to Isotropic Multilayers.

The surface chemistry of water on zinc oxides is an important topic in catalysis and photocatalysis. Interaction of D2O with anisotropic ZnO(101‾ 0) surfaces was studied by IR reflection absorption spectroscopy using s‐ and p‐polarized light incident along different directions. Interpretation of the experimental data is aided using isotopologues and DFT calculations. The presence of numerous species is revealed: intact monomers, a mixed 2D D2O/OD adlayer, an anisotropic bilayer, and H‐bonded 3D structures. The isolated water monomers are identified unambiguously at low temperatures. The thermally induced diffusion of water monomers occurs at elevated temperatures, forming dimers that undergo autocatalytic dissociation via proton transfer. Polarization‐ and azimuth‐resolved IR data provide information on the orientation and strength of H‐bonds within the 2D and 3D structures. Ab initio molecular dynamics simulations reveal strong anharmonic couplings within the H‐bond network.

Structural Evolution of Water on ZnO(100): From Isolated Monomers via Anisotropic H‐Bonded 2D and 3D Structures to Isotropic Multilayers

AbstractThe surface chemistry of water on zinc oxides is an important topic in catalysis and photocatalysis. Interaction of D2O with anisotropic ZnO(10 0) surfaces was studied by IR reflection absorption spectroscopy using s‐ and p‐polarized light incident along different directions. Interpretation of the experimental data is aided using isotopologues and DFT calculations. The presence of numerous species is revealed: intact monomers, a mixed 2D D2O/OD adlayer, an anisotropic bilayer, and H‐bonded 3D structures. The isolated water monomers are identified unambiguously at low temperatures. The thermally induced diffusion of water monomers occurs at elevated temperatures, forming dimers that undergo autocatalytic dissociation via proton transfer. Polarization‐ and azimuth‐resolved IR data provide information on the orientation and strength of H‐bonds within the 2D and 3D structures. Ab initio molecular dynamics simulations reveal strong anharmonic couplings within the H‐bond network.

Ovotransferrin nanofibril formation in the presence of glycerol or sorbitol

Impact of glycerol and sorbitol on assembly of iron-bound ovotransferrin (OVT) into nanofibrils was investigated. Thioflavin T fluorescence result indicated that the presence of glycerol or sorbitol could reduce the rate of OVT fibrillation. Sodium dodecyl sulfate polyacrylamide gel electrophoresis demonstrated that 60% sorbitol could retard hydrolysis of OVT completely for a period of time during thermal treatment, and decoupling hydrolysis from fibril self-assembly helped to identify the building blocks of OVT nanofibrils. OVT nanofibrils were composed of both intact OVT monomers and OVT-derived peptides. Influence of glycerol and sorbitol on morphology of OVT nanofibrils was studied using atomic force microscopy. The presence of glycerol or sorbitol shortened OVT nanofibrils, and the presence of 60% glycerol or sorbitol could increase thickness of OVT nanofibrils. Hopefully, this work may provide new insight about building blocks of protein nanofibrils and impact of polyols on protein fibrillation.

A rapid and quantitative technique for assessing IgG monomeric purity, calibrated with the NISTmAb reference material

The fraction of intact monomer in a sample (moles/moles), the monomeric purity, is measured as a quality control in therapeutic monoclonal antibodies but is often unknown in research samples and remains a major source of variation in quantitative antibody-based techniques such as immunoassay development. Here, we describe a novel multiplex technique for estimating the monomeric purity and antigen affinity of research grade antibody samples. Light scattering was used to simultaneously observe the mass of antibody binding to biosensor surfaces functionalised with antigen (revealing Fab binding kinetics) or protein A/G (PAG). Initial estimates of monomeric purity in 7 antibody samples including a therapeutic infliximab biosimilar were estimated by observing a mass deficit on the PAG surface compared to the NISTmAb standard of high monomeric purity. Monomeric purity estimates were improved in a second step by observing the mass of antigen binding to the mass of antibody on the PAG surface. The NISTmAb and infliximab biosimilar displayed tightly controlled stoichiometries for antigen binding of 1.31 ± 0.57 and 1.71 ± 0.16 (95% confidence interval)—within the theoretical limit of 1–2 antigens per antibody depending on avidity. The other antibodies in the panel displayed antigen binding stoichiometries in the range 0.06–1.15, attributed to lower monomeric purity. The monomeric purity estimates were verified by electrospray ionization mass spectrometry (ESI), the gold standard technique for structural characterization of antibodies. ESI data indicated that the NISTmAb and infliximab biosimilar samples had monomeric purity values of 93.5% and 94.7%, respectively, whilst the research grade samples were significantly lower (54–89%). Our results demonstrate rapid quality control testing for monomeric purity of antibody samples (< 15 min) which could improve the reproducibility of antibody-based experiments.

Crystallization and X-ray analysis of monodisperse human properdin.

The 54 kDa protein properdin, also known as factor P (FP), plays a major role in the complement system through the stabilization of the alternative pathway convertases. FP circulates in the blood as cyclic dimers, trimers and tetramers, and this heterogeneity challenges detailed structural insight into the mechanism of convertase stabilization by FP. Here, the generation of an intact FP monomer and a variant monomer with the third thrombospondin repeat liberated is described. Both FP monomers were excised from recombinant full-length FP containing internal cleavage sites for TEV protease. These FP monomers could be crystallized, and complete data sets extending to 2.8 Å resolution for the intact FP monomer and to 3.5 Å resolution for the truncated variant were collected. The principle of specific monomer excision and domain removal by the insertion of a protease cleavage site may be broadly applicable to structural studies of oligomeric, flexible and modular proteins.

Carboxyl-Functionalized Nanoparticles Produced by Pulsed Plasma Polymerization of Acrylic Acid.

Carboxyl-enriched and size-selected polymer nanoparticles (NPs) may prove to be very useful in biomedical applications for linker-free binding of biomolecules and their transport to cells. In this study, we report about the synthesis of such NPs by low-pressure low-temperature pulsed plasma polymerization of acrylic acid. Gas aggregation cluster source was adapted to operate plasma with a constant pulse period of 50 μs and with varying duty cycle. The NPs were produced with the size ranging from 31 ± 5 to 93 ± 14 nm and with retention of the carboxyl groups ranging from 4.0 to 12.0 atom %. Two regimes of the NP formation were identified. In the large duty cycle regime, the NP growth was interfered with by positive ion bombardment which resulted in the ion-driven detachment of the carboxyl species and in the formation of carboxyl-deficient NPs. In the small duty cycle regime, the NP growth was accompanied by the radical-driven chain propagation with the attachment of intact monomer molecules. Improved efficacy of the monomer retention resulted in increased concentration of the carboxyl groups.

Collision induced unfolding detects subtle differences in intact antibody glycoforms and associated fragments

Glycosylation has a significant impact on the effector function, immunogenicity, plasmatic clearance, and resistance towards proteases for monoclonal antibodies. Antibody glycoforms directly result in a form of structural heterogeneity due to the variety of sugar moieties and the available range of assembly states for the sugar linkages involved. Thus, the rapid characterization of antibody glycosylation is a critical yet challenging objective in the development of antibody-based therapeutics. Recently, we introduced an ion mobility-mass spectrometry approach for intact antibody analysis, which involves the collision induced unfolding of intact antibody ions. In this report, we demonstrate the use of such gas-phase unfolding analyses to differentiate subtly-different glycoforms within both intact antibody monomers and antibody Fc fragments, using minimal sample preparation and purification. We find evidence for a strong correlation between the gas-phase stabilities of antibody ions and the number of sugars attached to their sequences. We conclude by projecting the utility of our gas-phase unfolding assay in the context of antibody characterization workflows aimed at differentiating antibody glycoforms that cannot be readily resolved by MS alone.

Unique Regulatory Properties of Heterotetrameric Inositol 1,4,5-Trisphosphate Receptors Revealed by Studying Concatenated Receptor Constructs

The ability of inositol 1,4,5-trisphosphate receptors (IP3R) to precisely initiate and generate a diverse variety of intracellular Ca(2+) signals is in part mediated by the differential regulation of the three subtypes (R1, R2, and R3) by key functional modulators (IP3, Ca(2+), and ATP). However, the contribution of IP3R heterotetramerization to Ca(2+) signal diversity has largely been unexplored. In this report, we provide the first definitive biochemical evidence of endogenous heterotetramer formation. Additionally, we examine the contribution of individual subtypes within defined concatenated heterotetramers to the shaping of Ca(2+) signals. Under conditions where key regulators of IP3R function are optimal for Ca(2+) release, we demonstrate that individual monomers within heteromeric IP3Rs contributed equally toward generating a distinct 'blended' sensitivity to IP3 that is likely dictated by the unique IP3 binding affinity of the heteromers. However, under suboptimal conditions where [ATP] were varied, we found that one subtype dictated the ATP regulatory properties of heteromers. We show that R2 monomers within a heterotetramer were both necessary and sufficient to dictate the ATP regulatory properties. Finally, the ATP-binding site B in R2 critical for ATP regulation was mutated and rendered non-functional to address questions relating to the stoichiometry of IP3R regulation. Two intact R2 monomers were sufficient to maintain ATP regulation in R2 homotetramers. In summary, we demonstrate that heterotetrameric IP3R do not necessarily behave as the sum of the constituent subunits, and these properties likely extend the versatility of IP3-induced Ca(2+) signaling in cells expressing multiple IP3R isoforms.

ChemInform Abstract: Medicinal Chemistry Focusing on Aggregation of Amyloid‐β

AbstractReview: 78 refs.

Medicinal Chemistry Focusing on Aggregation of Amyloid-β.

The aggregation of peptides/proteins is intimately related to a number of human diseases. More than 20 have been identified which aggregate into fibrils containing extensive β-sheet structures, and species generated in the aggregation processes (i.e., oligomers and fibrils) contribute to disease development. Amyloid-β peptide (designated Aβ), related to Alzheimer's disease (AD), is the representative example. The intensive aggregation property of Aβ also leads to difficulty in its synthesis. To improve the synthetic problem, we developed an O-acyl isopeptide of Aβ1-42, in which the N-acyl linkage (amide bond) of Ser(26) was replaced with an O-acyl linkage (ester bond) at the side chain. The O-acyl isopeptide demonstrated markedly higher water-solubility than that of Aβ1-42, while it quickly converted to intact monomer Aβ1-42 via an O-to-N acyl rearrangement under physiological conditions. Inhibition of the pathogenic aggregation of Aβ1-42 might be a therapeutic strategy for curing AD. We succeeded in the rational design and identification of a small molecule aggregation inhibitor based on a pharmacophore motif obtained from cyclo[-Lys-Leu-Val-Phe-Phe-]. Moreover, the inhibition of Aβ aggregation was achieved via oxygenation (i.e., incorporation of oxygen atoms to Aβ) using an artificial catalyst. We identified a selective, cell-compatible photo-oxygenation catalyst of Aβ, a flavin catalyst attached to an Aβ-binding peptide, which markedly decreased the aggregation potency and neurotoxicity of Aβ.