Investigation of Sequence Clipping and Structural Heterogeneity of an HIV Broadly Neutralizing Antibody by a Comprehensive LC-MS Analysis

CAP256 is one of the highly potent, broadly neutralizing monoclonal antibodies (bNAb) designed for HIV-1 therapy. During the process development of one of the constructs, an unexpected product-related impurity was observed via microfluidics gel electrophoresis. A panel of complementary LC-MS analyses was applied for the comprehensive characterization of CAP256 which included the analysis of the intact and reduced protein, the middle-up approach, and a set of complementary peptide mapping techniques and verification of the disulfide bonds. The designed workflow allowed to identify a clip within a protruding acidic loop in the CDR-H3 region of the heavy chain, which can lead to the decrease of bNAb potency. This characterization explained the origin of the additional species reflected by the reducing gel profile. An intra-loop disulfide bond linking the two fragments was identified, which explained why the non-reducing capillary electrophoresis (CE) profile was not affected. The extensive characterization of CAP256 post-translational modifications was performed to investigate a possible cause of CE profile complexity and to illustrate other structural details related to this molecule’s biological function. Two sites of the engineered Tyr sulfation were verified in the antigen-binding loop, and pyroglutamate formation was used as a tool for monitoring the extent of antibody clipping. Overall, the comprehensive LC-MS study was crucial to (1) identify the impurity as sequence clipping, (2) pinpoint the clipping location and justify its susceptibility relative to the molecular structure, (3) lead to an upstream process optimization to mitigate product quality risk, and (4) ultimately re-engineer the sequence to be clip-resistant.

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Synthesis, structure, and electrochemical studies of molybdenum and tungsten dinitrogen, diazenido, and hydrazido complexes that contain aryl-substituted triamidoamine ligands

One-electron reduction of [ArN(3)N]MoCl complexes (Ar = C(6)H(5), 4-FC(6)H(4), 4-t-BuC(6)H(4), 3,5-Me(2)C(6)H(3)) yields complexes of the type [ArN(3)N]Mo-N=N-Mo[ArN(3)N], while two-electron reduction yields ([ArN(3)N]Mo-N=N)(-) derivatives (Ar = C(6)H(5), 4-FC(6)H(4), 4-t-BuC(6)H(4), 3,5-Me(2)C(6)H(3), 3,5-Ph(2)C(6)H(3), and 3,5-(4-t-BuC(6)H(4))(2)C(6)H(3)). Compounds that were crystallographically characterized include ([t-BuC(6)H(4)N(3)N]Mo)(2)(N(2)), Na(THF)(6)([PhN(3)N]Mo-N=N)(2)Na(THF)(3), [t-BuC(6)H(4)N(3)N]Mo-N=N-Na(15-crown-5), and ([Ph(2)C(6)H(3)N(3)N]MoNN)(2)Mg(DME)(2). Compounds of the type [ArN(3)N]Mo-N=N-Mo[ArN(3)N] do not appear to form when Ar = 3,5-Ph(2)C(6)H(3) or 3,5-(4-t-BuC(6)H(4))(2)C(6)H(3), presumably for steric reasons. Treatment of diazenido complexes (e.g., [ArN(3)N]Mo-N=N-Na(THF)(x)) with electrophiles such as Me(3)SiCl or MeOTf yielded [ArN(3)N]Mo-N=NR complexes (R = SiMe(3) or Me). These species react further to yield ([ArN(3)N]Mo-N=NMe(2))(+) species in the presence of methylating agents. Addition of anionic methyl reagents to ([ArN(3)N]Mo-N=NMe(2))(+) species yielded [ArN(3)N]Mo(N=NMe(2))(Me) complexes. Reduction of [4-t-BuC(6)H(4)N(3)N]WCl under dinitrogen leads to a rare ([t-BuC(6)H(4)N(3)N]W)(2)(N(2)) species that can be oxidized by two electrons to give a stable dication (as its BPh(4)(-) salt). Reduction of hydrazido species leads to formation of Mo=N in low yields, and only dimethylamine could be identified among the many products. Electrochemical studies revealed expected trends in oxidation and reduction potentials, but also provided evidence for stable neutral dinitrogen complexes of the type [ArN(3)N]Mo(N(2)) when Ar is a relatively bulky terphenyl substituent.     

Gas-phase carbene radical anions: new mechanistic insights

The gas-phase reactivity of the CHCl*- anion has been investigated with a series of halomethanes (CCl4, CHCl3, CH2Cl2, and CH3Cl) using a FA-SIFT instrument. Results show that this anion primarily reacts via substitution and by proton transfer. In addition, the reactions of CHCl*- with CHCl3 and CH2Cl2 form minor amounts of Cl2*- and Cl-. The isotopic distribution of these two products is consistent with an insertion-elimination mechanism, where the anion inserts into a C-Cl bond to form an unstable intermediate, which eliminates either Cl2*- or Cl- and Cl*. Neutral and cationic carbenes are known to insert into single bonds; however, this is the first observation of such reactivity for carbene anions.     

Laccases ofRigidoporus lignosus andPhellinus noxius

A laccase that has been isolated previously (1) from the Basidiomycete,Rigidoporus lignosus, a white rot fungus of rubber tree, was used in the present study. When a thioglycolic lignin (TGL) was incubated in the presence of this enzyme, pronounced changes in the UV spectrum and size distribution of the substrate were observed. Sephadex gel filtration indicated that two types of reactions occurred: (1) A degradation of the polymer, as evidenced by the production of low-molecular-weight material; and (2) a condensation of some of the TGL molecules, as revealed by an increase in the fractions of higher molecular weight.     

A new sensitive and selective sensor for heavy metal ions based on tannin extracted from the skin of Punica granatum L

This article presents the development of a sensor made from a gold electrode and a receiving polymeric membrane based on tannin extracted from the skin of Punica granatum. L (pomegranate) for real-time detection of heavy metals in a hydrous environment. The basic principle of this device is the complexing (chelating) of metal ions through the adjacent hydroxyl groups contained in the chemical structures of the tannins. The electrochemical characterisation was performed by using electrochemical impedance spectroscopy and square wave voltammetry. Other morphological and structural analyses were performed by using Fourier transform infrared spectroscopy and atomic-force microscopy. The results obtained showed the high sensitivity of the developed device (detection limits of 6.35 × 10^?9 g L^?1 for Cu²⁺, 1.1 × 10^?8 g L^?1 for Cd²⁺ and 2 × 10^?7 g L^?1 for Pb²⁺) and the possibility of simultaneously detecting several heavy metals, each one in a highly selective manner with highly acceptable response time (48s).     

Studies on pyrrolidinones. On the application of copper-catalyzed arylation of methyl pyroglutamate to obtain a new benzo[de]quinoline scaffold

Optimized conditions for copper-catalyzed N-arylation of methyl pyroglutamate are described. These studies permitted the synthesis of methyl N-naphthylpyroglutamate, which was then cyclized to a ketone. The known dehydration of amidoketones by PPA was extended to this new scaffold to lead to a novel condensed benzo[de]quinoline with potential antioxidative activity.     

A catalytic C?C bond‐forming reaction between aliphatic fluorohydrocarbons and arylsilanes

C? C coupling reactions between arylsilanes and alkylfluorides are efficiently catalyzed by disilyl cation 1. Primary as well as secondary alkylfluorides were quantitatively coupled with arylsilanes; however, in the case of tertiary fluorides, the hydrodefluorination reaction predominated. Primary alkylfluorides were found to give arenes with mostly rearranged alkyl substituents. In all cases subsequent Friedel–Crafts‐type chemistry occurred. Copyright © 2010 John Wiley & Sons, Ltd.     

Viscoelasticity-induced migration of a rigid sphere in confined shear flow

Suspensions of solid particles in liquids are often made to flow in devices with characteristic dimensions comparable to that of the suspended particles, the so-called confined situation, as in the case of several microfluidic applications. Combination of confinement with viscoelasticity of the suspending liquid can lead to peculiar effects. In this paper we present the first 3D simulation of the dynamics of a particle suspended in a viscoelastic liquid under imposed confined shear flow. The full system of equations is solved through the finite element method. A DEVSS/SUPG formulation with a log-representation of the conformation tensor is implemented, assuring stable and convergent results up to high flow rates. Particle motion is handled through an ALE formulation. To optimize the computational effort and to reduce the remeshing and projection steps required when the mesh becomes too distorted, a rigid motion of the grid in the flow direction is performed, so that, in fact, the particle moves along the cross-streamline direction only.Confinement and viscoelasticity are found to induce particle migration, i.e., transverse motion across the main flow direction, towards the closest wall. Under continuous shearing, three different dynamical regimes are recognized, related to the particle-wall distance. A simple heuristic argument is given to link the cross-flow migration to normal stresses in the suspending liquid.The analysis is then extended to a time-dependent shear flow imposed by periodically inverting the direction of wall motion. A slower migration is found for higher forcing frequency. A peculiar effect arises if the inversion period is chosen close to the fluid relaxation time: the migration velocity oscillates around zero, and the overall migration is suppressed. Such novel prediction of a dynamic instability scenario, with the particle escaping the center plane of the channel, and many features of the computed results, are in nice agreement with recent experiments reported in the literature [14].     

Plant drug analysis by planar chromatography

Optimal performance laminar chromatography and automated multiple development chromatography are relatively recent techniques of planar chromatography that can be applied with success in plant material analysis. Therefore, these methods are used to study plant extracts and constituents belonging to different chemical classes of secondary metabolism: heterocyclic oxygen compounds (coumarins, flavonoids, and anthocyanins), alkaloids and quaternary ammonium salts, cannabinoids, essential oils, ginsenosides, and cardiac heterosides. Generally, the results obtained with these methods are good, and in most cases they compare with those of thin-layer chromatography.