The first solvation shell of Reichardt’s dye in ionic liquids: a semiempirical study

The nature of solvation of Reichardt’s dye in ionic liquids is investigated through semiempirical calculations. We build on the basis of electrostatic considerations a cluster of three ionic pairs that represent the first solvation shell of the dye. The spatial organization of this shell is a balance between sterical, electrostatic and, in the case of functionalized ionic liquids, specific interactions. This model is not sufficient to obtain values of ET(30) quantitatively comparable to the experimental ones, but some qualitative features can be rationalized. The resulting scenario of solute–solvent interactions is different with respect to molecular solvents. Thus, we suggest caution in comparing ionic and molecular solvents through solvatochromic scales.     

A zirconium dichloro complex supported by an ancillary stereorigid tetradentate bis(phenoxo-imino) Schiff-base-donor ligand: Evidence for a conformational equilibrium between two solution stereoisomers

Reaction of the dilithium salt of the Schiff-base N,N′-o-phenylene-bis(3,5-di-tert-butyl-salicylidene-imine) (^tBu₄salophenH₂) with 1 equiv. of ZrCl₄(THF)₂ in toluene at −78 °C affords the dichloro complex ZrCl₂[C₆H₄-1,2-{NCH-(3,5-^tBu₂C₆H₂-2-O)}₂], isolated as a mixture of the C_2v-(3a) and C₂-(3b) symmetry isomers. Thermodynamic and kinetic parameters for the equilibrium between 3a and 3b have been determined and studied by ¹H NMR spectroscopy. Reactions of ZrCl₂[C₆H₄-1,2-{NCH-(3,5-^tBu₂C₆H₂-2-O)}₂] with alkylating reagents gave an intractable, unidentified mixture of products from which the NMR spectra in C₆D₆ solution are unusable.     

Influence of relative response factor in the determination of organic microcontaminants with isotopically labeled standards

The use of isotopically labeled internal standards in the analysis of organic microcontaminants entails the determination of relative response factors (RRFs) of the unlabeled with respect to the labeled compounds. RRFs were measured daily during 28 replicate polychlorobiphenyl (PCB) analyses on two different sets of samples. Daily RRFs allowed more precise results to be attained than those provided by mean RRFs, the latter being the mean of all the daily RRFs obtained during the same series of analyses. Analytical applications to food matrices are presented, including the PCB contamination profile of an olive oil and that found in a matrix of Italian national mean diet. Based on the latter sample, also the polycyclic aromatic hydrocarbon (PAH) daily intake of Italians is assessed. Seven PAHs are determined.     

Global intercompany assessment of ICIEF platform comparability for the characterization of therapeutic proteins

An international team spanning 19 sites across 18 biopharmaceutical and in vitro diagnostics companies in the United States, Europe, and China, along with one regulatory agency, was formed to compare the precision and robustness of imaged CIEF (ICIEF) for the charge heterogeneity analysis of the National Institute of Standards and Technology (NIST) mAb and a rhPD-L1-Fc fusion protein on the iCE3 and the Maurice instruments. This information has been requested to help companies better understand how these instruments compare and how to transition ICIEF methods from iCE3 to the Maurice instrument. The different laboratories performed ICIEF on the NIST mAb and rhPD-L1-Fc with both the iCE3 and Maurice using analytical methods specifically developed for each of the molecules. After processing the electropherograms, statistical evaluation of the data was performed to determine consistencies within and between laboratory and outlying information. The apparent isoelectric point (pI) data generated, based on two-point calibration, for the main isoform of the NIST mAb showed high precision between laboratories, with RSD values of less than 0.3% on both instruments. The SDs for the NIST mAb and the rhPD-L1-Fc charged variants percent peak area values for both instruments are less than 1.02% across different laboratories. These results validate the appropriate use of both the iCE3 and Maurice for ICIEF in the biopharmaceutical industry in support of process development and regulatory submissions of biotherapeutic molecules. Further, the data comparability between the iCE3 and Maurice illustrates that the Maurice platform is a next-generation replacement for the iCE3 that provides comparable data.     

Accurate analysis of Mg2+ binding to RNA: From classical methods to a novel iterative calculation procedure

Mg²⁺ acts as a catalytic cofactor in many ribozymes and specifically bound divalent metal ions have been implicated in the stabilization of structural motifs that are essential for RNA folding. The accurate calculation of intrinsic affinity constants of M²⁺ to specific binding sites in nucleic acids is therefore of high importance. Methods classically applied to determine the affinity constants of metal ions to RNAs are summarized in the first part of this review, e.g. hydrolytic cleavage experiments, equilibrium dialysis, and spectroscopic techniques like EPR and NMR. However, the fact that several binding sites of similar affinities are often present in a single RNA molecule is mostly neglected. The most immediate consequence of several binding sites is that less than the total amount of M²⁺ is available to bind to a particular binding site at a given total concentration. We have recently introduced a new iterative procedure that tackles this problem and have developed a rapid calculation tool (ISTAR) that is available from the authors. Here, we explain this procedure in detail under different assumptions and illustrate how the intrinsic affinity constants for Mg²⁺ to a short RNA hairpin, a minimal domain 6 from the group II intron Sc.ai5γ, change. We use ISTAR to calculate intrinsic affinities and to validate a particular binding stoichiometry by judging the quality of the fit to the experimental data for a given model. This is important since weak coordination sites exhibiting similar binding affinities, and being thus in direct competition to each other, are a characteristic feature of nucleic acids. With ISTAR these binding affinities can be calculated more accurately within minutes and we can gain a better understanding of these crucial metal ion–nucleic acid interactions.     

Semisynthetic and Enzyme‐Mediated Conjugate Preparations Illuminate the Ubiquitination‐Dependent Aggregation of Tau Protein

In the brain of individuals with Alzheimer's disease, the regulatory protein ubiquitin is found conjugated to different lysine residues of tau protein assembled into pathological paired helical filaments. To shed light on the hitherto unexplored ubiquitination‐linked conformational transitions of tau, the availability of in vitro ubiquitin conjugation methods is of primary importance. In our work, we focused on the four‐repeat domain of tau and assembled an enzymatic machinery formed by UBE1, Ubc13, and CHIP enzymes. The enzymatic reaction resulted in monoubiquitination at multiple sites, reminiscent of the ubiquitination pattern observed in vivo. We further exploited chemoselective disulfide coupling reactions to construct three tau regioisomers with site‐specific monoubiquitination. Protein aggregation experiments revealed that the multiple enzyme‐derived products were unable to convert into amyloid fibrils, while the semisynthetic conjugates exhibited diverse capability to form filaments. This study contributes novel insight into the effects of a key post‐translational modification on aberrant protein self‐assembly.     

trans‐Di­chloro­tetrakis(4‐methylpyrimidine‐N1)­ruthenium(II)

The title compound, trans‐[Ru^IICl₂(N¹‐mepym)₄] (mepym is 4‐methylpyrimidine, C₅H₆N₂), obtained from the reaction of trans,cis,cis‐[Ru^IICl₂(N¹‐mepym)₂(SbPh₃)₂] (Ph is phenyl) with excess mepym in ethanol, has fourfold crystallographic symmetry and has the four pyrimidine bases coordinated through N¹ and arranged in a propeller‐like orientation. The Ru—N and Ru—Cl bond distances are 2.082 (2) and 2.400 (4) Å, respectively. The methyl group, and the N³ and Cl atoms are involved in intermolecular C—H?N and C—­H?Cl hydrogen‐bond interactions.     

The Introduction of a Cysteine Residue Modulates The Mechanical Properties of Aromatic-Based Solid Aggregates and Self-Supporting Hydrogels

Peptide-based hydrogels, originated by multiscale self-assembling phenomenon, have been proposed as multivalent tools in different technological areas. Structural studies and molecular dynamics simulations pointed out the capability of completely aromatic peptides to gelificate if hydrophilic and hydrophobic forces are opportunely balanced. Here, the effect produced by the introduction of a Cys residue in the heteroaromatic sequence of (FY)3 and in its PEGylated variant was evaluated. The physicochemical characterization indicates that both FYFCFYF and PEG8-FYFCFYF are able to self-assemble in supramolecular nanostructures whose basic cross-β motif resembles the one detected in the ancestor (FY)3 assemblies. However, gelification occurs only for FYFCFYF at a concentration of 1.5 wt%. After cross-linking of cysteine residues, the hydrogel undergoes to an improvement of the rigidity compared to the parent (FY)3 assemblies as suggested by the storage modulus (G’) that increases from 970 to 3360 Pa. The mechanical properties of FYFCFYF are compatible with its potential application in bone tissue regeneration. Moreover, the avalaibility of a Cys residue in the middle of the peptide sequence could allow the hydrogel derivatization with targeting moieties or with biologically relevant molecules.