Stability Enhancement of a Dimeric HER2-Specific Affibody Molecule through Sortase A-Catalyzed Head-to-Tail Cyclization

Natural backbone-cyclized proteins have an increased thermostability and resistance towards proteases, characteristics that have sparked interest in head-to-tail cyclization as a method to stability-enhance proteins used in diagnostics and therapeutic applications, for example. In this proof-of principle study, we have produced and investigated a head-to-tail cyclized and HER2-specific Z_HER2:342 Affibody dimer. The sortase A-mediated cyclization reaction is highly efficient (>95%) under optimized conditions, and renders a cyclic Z_HER3:342-dimer with an apparent melting temperature, T_m, of 68 °C, which is 3 °C higher than that of its linear counterpart. Circular dichroism spectra of the linear and cyclic dimers looked very similar in the far-UV range, both before and after thermal unfolding to 90 °C, which suggests that cyclization does not negatively impact the helicity or folding of the cyclic protein. The cyclic dimer had an apparent sub-nanomolar affinity (K_d ~750 pM) to the HER2-receptor, which is a ~150-fold reduction in affinity relative to the linear dimer (K_d ~5 pM), but the anti-HER2 Affibody dimer remained a high-affinity binder even after cyclization. No apparent difference in proteolytic stability was detected in an endopeptidase degradation assay for the cyclic and linear dimers. In contrast, in an exopeptidase degradation assay, the linear dimer was shown to be completely degraded after 5 min, while the cyclic dimer showed no detectable degradation even after 60 min. We further demonstrate that a site-specifically DyLight 594-labeled cyclic dimer shows specific binding to HER2-overexpressing cells. Taken together, the results presented here demonstrate that head-to-tail cyclization can be an effective strategy to increase the stability of an Affibody dimer.     

Evidence for symplectic symmetry in Ab initio no-core shell model results for light nuclei

Clear evidence for symplectic symmetry in low-lying states of 12C and 16O is reported. Eigenstates of 12C and 16O, determined within the framework of the no-core shell model using the J-matrix inverse scattering potential with A相似文献   

Stable and Storable N(CF3)2 Transfer Reagents

Fluorinated groups are essential for drug design, agrochemicals, and materials science. The bis(trifluoromethyl)amino group is an example of a stable group that has a high potential. While the number of molecules containing perfluoroalkyl, perfluoroalkoxy, and other fluorinated groups is steadily increasing, examples with the N(CF₃)₂ group are rare. One reason is that transfer reagents are scarce and metal-based storable reagents are unknown. Herein, a set of Cu^I and Ag^I bis(trifluoromethyl)amido complexes stabilized by N- and P-donor ligands with unprecedented stability are presented. The complexes are stable solids that can even be manipulated in air for a short time. They are bis(trifluoromethyl)amination reagents as shown by nucleophilic substitution and Sandmeyer reactions. In addition to a series of benzylbis(trifluoromethyl)amines, 2-bis(trifluoromethyl)amino acetate was obtained, which, upon hydrolysis, gives the fluorinated amino acid N,N-bis(trifluoromethyl)glycine.     

Overcoming Selectivity and Sensitivity Issues of Direct Inject Electrospray Mass Spectrometry via DAPNe-NSI-MS

Direct inject electrospray mass spectrometry offers minimal sample preparation and a “shotgun” approach to analyzing samples. However, complex matrix effects often make direct inject an undesirable sample introduction technique, particularly for trace level analytes. Highlighted here is our solution to the pitfalls of direct inject mass spectrometry and other ambient ionization methods with a focus on trace explosives. Direct analyte-probed nanoextraction coupled to nanospray ionization mass spectrometry solves selectivity issues and reduces matrix effects while maintaining minimal sample preparation requirements. With appropriate solvent conditions, most explosive residues can be analyzed with this technique regardless of the nature of the substance (i.e., nitroaromatic, oxidizing salt, or peroxide).

Stapled Peptides as HIF-1α/p300 Inhibitors: Helicity Enhancement in the Bound State Increases Inhibitory Potency

Protein–protein interactions (PPIs) control virtually all cellular processes and have thus emerged as potential targets for development of molecular therapeutics. Peptide-based inhibitors of PPIs are attractive given that they offer recognition potency and selectivity features that are ideal for function, yet, they do not predominantly populate the bioactive conformation, frequently suffer from poor cellular uptake and are easily degraded, for example, by proteases. The constraint of peptides in a bioactive conformation has emerged as a promising strategy to mitigate against these liabilities. In this work, using peptides derived from hypoxia-inducible factor 1 (HIF-1α) together with dibromomaleimide stapling, we identify constrained peptide inhibitors of the HIF-1α/p300 interaction that are more potent than their unconstrained sequences. Contrary to expectation, the increased potency does not correlate with an increased population of an α-helical conformation in the unbound state as demonstrated by experimental circular dichroism analysis. Rather, the ability of the peptide to adopt a bioactive α-helical conformation in the p300 bound state is better supported in the constrained variant as demonstrated by molecular dynamics simulations and circular dichroism difference spectra.     

Purification of Hydrogen from CO with Cu/ZSM-5 Adsorbents

The transition to a hydrogen economy requires the development of cost-effective methods for purifying hydrogen from CO. In this study, we explore the possibilities of Cu/ZSM-5 as an adsorbent for this purpose. Samples obtained by cation exchange from aqueous solution (AE) and solid-state exchange with CuCl (SE) were characterized by in situ EPR and FTIR, H₂-TPR, CO-TPD, etc. The AE samples possess mainly isolated Cu²⁺ cations not adsorbing CO. Reduction generates Cu⁺ sites demonstrating different affinity to CO, with the strongest centres desorbing CO at about 350 °C. The SE samples have about twice higher Cu/Al ratios, as one H⁺ is exchanged with one Cu⁺ cation. Although some of the introduced Cu⁺ sites are oxidized to Cu²⁺ upon contact with air, they easily recover their original oxidation state after thermal treatment in vacuum or under inert gas stream. In addition, these Cu⁺ centres regenerate at relatively low temperatures. It is important that water does not block the CO adsorption sites because of the formation of Cu⁺(CO)(H₂O)_x complexes. Dynamic adsorption studies show that Cu/ZSM-5 selectively adsorbs CO in the presence of hydrogen. The results indicate that the SE samples are very perspective materials for purification of H₂ from CO.     

On Roussel–Rubio-type lemmas and their consequences

Roussel and Rubio proved a lemma which is essential in the proof of the Strong Perfect Graph Theorem. We give a new short proof of the main case of this lemma. In this note, we also give a short proof of Hayward’s decomposition theorem for weakly chordal graphs, relying on a Roussel–Rubio-type lemma. We recall how Roussel–Rubio-type lemmas yield very short proofs of the existence of even pairs in weakly chordal graphs and Meyniel graphs.     

Raman scattering studies of the high-pressure stability of pentaerythritol tetranitrate, C(CH2ONO2)4

High-pressure Raman scattering studies have been performed on a crystalline energetic material, pentaerythritol tetranitrate C(CH2ONO2)4 (PETN), an important secondary explosive. In situ, ambient-temperature investigations employed diamond anvil cell techniques and nitrogen as a quasi-hydrostatic-pressure-transmitting medium. The pressure-induced alterations in the profiles of the Raman lines, including positions, bandwidths, and intensities, were studied in a compression sequence up to about 31.3 GPa and in a subsequent decompression to ambient conditions. The observed changes of the Raman spectra implied that PETN gradually densified and compressed smoothly up to the highest investigated pressures. Compression below 12 GPa gradually shifted all Raman peaks to higher frequencies without significantly changing their relative intensities or bandwidths. At higher pressures, the peak intensities of the Raman spectra decreased considerably and the bands broadened significantly. The Raman spectrum of the material quenched from 31.3 GPa to ambient conditions indicated that no pressure-driven permanent reconstructive modification or decomposition of the PETN structure occurred. That is, the spectral changes were completely reversible upon compression and subsequent decompression to ambient conditions.