Polar Side Chains Research Articles

Radical Mediated Decarboxylation of Amino Acids via Photochemical Carbonyl Sulfide (COS) Elimination.

Herein, we present the first examples of amino acid decarboxylation via photochemically activated carbonyl sulfide (COS) elimination of the corresponding thioacids. This method offers a mild approach for the decarboxylation of amino acids, furnishing N-alkyl amino derivatives. The methodology was compatible with amino acids displaying both polar and hydrophobic sidechains and was tolerant towards widely used amino acid-protecting groups. The compatibility of the reaction with continuous-flow conditions demonstrates the scalability of the process.

Thermal Cross-Linking preparation of Aqueous-Based cathodic films for enhanced stability in organic electrochromic devices

Four derivatives of naphthalene diimide (NDI) small molecules with different polar functional side chains were designed and synthesized. The corresponding polymers, PNDI-5C/8C/DC/TC, were further prepared by thermal cross-linking method and utilized to fabricate organic electrochromic films. All of the PNDI-5C/8C/DC/TC films exhibit solvent resistance characteristics in commonly used organic solvents and water, and they possess varied surface energies, reduction voltages and electrochemical stabilities in aqueous electrolytes. The PNDI-TC film, which has the highest hydrophilicity, has a high optical contrast of 43.3 % with a short coloring time of 1.9 s and bleaching time of 0.6 s. Most importantly, the performance of the organic electrochromic device based on PNDI-TC can maintain almost 100 % contrast after 1000 cycles, showing great potential in the application of aqueous-based organic electrochromic device.

A Cross-linked n-Type Conjugated Polymer with Polar Side Chains Enables Ultrafast Pseudocapacitive Energy Storage.

Pseudocapacitors bridge the performance gap between batteries and electric double-layer capacitors by storing energy via a combination of fast surface/near-surface Faradaic redox processes and electrical double-layer capacitance. Organic semiconductors are an emerging class of pseudocapacitive materials that benefit from facile synthetic tunability and mixed ionic-electronic conduction. Reported examples are mostly limited to p-type (electron-donating) conjugated polymers, while n-type (electron-accepting) examples remain comparatively underexplored. This work introduces a new cross-linked n-type conjugated polymer, spiro-NDI-N, strategically designed with polar tertiary amine side chains. This molecular design aims to synergistically increase the electroactive surface area and boost ion transport for efficient ionic-electronic coupling. Spiro-NDI-N demonstrates excellent pseudocapacitive energy storage performance in pH-neutral aqueous electrolytes, with specific capacitance values of up to 532 F g-1 at 5 A g-1 and stable cycling over 5000 cycles. Moreover, it maintains a rate capability of 307 F g-1 at 350 A g-1. The superior pseudocapacitive performance of spiro-NDI-N, compared to strategically designed structural analogues lacking either the cross-linked backbone or polar side chains, validates the essential role of its molecular design elements. More broadly, the design and performance of spiro-NDI-N provide a novel strategy for developing high-performance organic pseudocapacitors.

The Impact of C-3 Side Chain Modifications on Kynurenic Acid: A Behavioral Analysis of Its Analogs in the Motor Domain.

The central nervous system (CNS) is the final frontier in drug delivery because of the blood-brain barrier (BBB), which poses significant barriers to the access of most drugs to their targets. Kynurenic acid (KYNA), a tryptophan (Trp) metabolite, plays an important role in behavioral functions, and abnormal KYNA levels have been observed in neuropsychiatric conditions. The current challenge lies in delivering KYNA to the CNS owing to its polar side chain. Recently, C-3 side chain-modified KYNA analogs have been shown to cross the BBB; however, it is unclear whether they retain the biological functions of the parent molecule. This study examined the impact of KYNA analogs, specifically, SZR-72, SZR-104, and the newly developed SZRG-21, on behavior. The analogs were administered intracerebroventricularly (i.c.v.), and their effects on the motor domain were compared with those of KYNA. Specifically, open-field (OF) and rotarod (RR) tests were employed to assess motor activity and skills. SZR-104 increased horizontal exploratory activity in the OF test at a dose of 0.04 μmol/4 μL, while SZR-72 decreased vertical activity at doses of 0.04 and 0.1 μmol/4 μL. In the RR test, however, neither KYNA nor its analogs showed any significant differences in motor skills at either dose. Side chain modification affects affective motor performance and exploratory behavior, as the results show for the first time. In this study, we showed that KYNA analogs alter emotional components such as motor-associated curiosity and emotions. Consequently, drug design necessitates the development of precise strategies to traverse the BBB while paying close attention to modifications in their effects on behavior.

Molecular Design for Vertical Phase Distribution Modulation in High-Performance Organic Solar Cells.

Component distribution within the photoactive layer dictates the morphology and electronic structure and substantially influences the performance of organic solar cells (OSCs). In this study, a molecular design strategy is introduced to manipulate component and energetics distribution by adjusting side-chain polarity. Two non-fullerene acceptors (NFAs), ITIC-16F and ITIC-E, are synthesized by introducing different polar functional substituents onto the side chains of ITIC. The alterations result in different distribution tendencies in the bulk heterojunction film: ITIC-16F with intensified hydrophobicity aligns predominantly with the top surface, while ITIC-E with strong hydrophilicity gravitates toward the bottom. This divergence directly impacts the vertical distribution of the excitation energy levels, thereby influencing the excitation kinetics over extended time periods and larger spatial ranges including enhanced diffusion-mediated exciton dissociation and stimulated charge carrier transport. Benefitting from the favorable energy distribution, the device incorporating ITIC-E into the PBQx-TF:eC9-2Cl blend showcases an impressive power conversion efficiency of 19.4%. This work highlights side-chain polarity manipulation as a promising strategy for designing efficient NFA molecules and underscores the pivotal role of spatial energetics distribution in OSC performance.

Tuning the order of poly(3-alkylthiophene) derivatives ultrathin films through side-chain polarity: From a short-range ordered monolayer to a highly crystalline bilayer

In order to pave the way for the formation of ultrathin electronically conductive organic films, we explored the structure and morphology of polythiophene derivatives in situ on the water surface. By changing the side chain end-group of poly(3-hexylthiophene) (P3HT) from methyl to carboxylic acid potassium salt, we showed that the film structure is drastically changed from a highly ordered bilayer to a short-range organized monolayer. Using a comprehensive experimental approach from macroscopic length scale to molecular organization as well as simulations of diffraction patterns, the detailed structure of the crystalline P3HT bilayer was determined. Some similarities with the structure measured on thicker films deposited on solid substrates were evidenced such as the π-stacking distance, the interlayer spacing, and the edge-on conformation. Some differences were also pointed out, in particular the in-plane packing along the polymer backbones and the shift of the upper monolayer with respect to the bottom one in this direction. Such observations highlighted the influence of both the forced two-dimensional confinement and the nature of the substrate (water) on the P3HT film structure. The presence of a carboxylic acid potassium salt at the end of the side chain induced completely different behavior. Indeed, high pressures were necessary to observe a π-stacking of the thiophene units, but only short-range, and although the polymer keeps a monolayer organization independently of the pressure, a deep change in the polymer conformation was evidenced with the pressure.

Oligo (ethylene glycol)-grafted poly(terphenyl indole piperidinium) with high water diffusivity for anion exchange membrane fuel cells

The water diffusivity of polymeric anion exchange membranes (AEMs) plays a critical role in determining the AEM fuel cells (AEMFCs) performance because it generates an imbalance in the amount of water at the anode and cathode. However, the correlation between water diffusivity and the chemical structure of AEMs remains unclear. This study focuses on a series of oligo(ethylene glycol) (OEG) functionalized poly(arylene indole piperidinium) AEMs, in which OEG grafts are directly attached onto the polymer backbones. The polar and flexible OEG side chains afford a microphase-separated morphology, close polymer-chain packing, and extra sites for water–ion transport, resulting in high ion-exchange-capacity (IEC)-normalized conductivity, improved water diffusivity, and dimensional stability. Moreover, these side chains provide excellent ex-situ stability in a 1 M NaOH solution (80 °C) for 1080 h, surpassing the stability of its alkyl side chain counterpart (PITP-C10Q85) by a significant margin. The resultant PITP-OEG-85 with the highest water diffusivity exhibits a highest peak power density of 1.23 W cm−2 at 80 °C despite its low IEC value and conductivity. In-situ durability tests of this membrane at 0.2 A cm−2 for 24 h revealed the degradation of piperidinium under harsh conditions (70 % anode relative humidity at 60 °C). This work opens a new avenue for designing highly conductive and alkali-stable AEM materials with high water diffusivity to realize high-performance AEMFCs.

Identification of yttrium oxide-specific peptides for future recycling of rare earth elements from electronic scrap.

Yttrium is a heavy rare earth element (REE) that acquires remarkable characteristics when it is in oxide form and doped with other REEs. Owing to these characteristics Y2 O3 can be used in the manufacture of several products. However, a supply deficit of this mineral is expected in the coming years, contributing to its price fluctuation. Thus, developing an efficient, cost-effective, and eco-friendly process to recover Y2 O3 from secondary sources has become necessary. In this study, we used phage surface display to screen peptides with high specificity for Y2 O3 particles. After three rounds of enrichment, a phage expressing the peptide TRTGCHVPRCNTLS (DM39) from the random pVIII phage peptide library Cys4 was found to bind specifically to Y2 O3 , being 531.6-fold more efficient than the wild-type phage. The phage DM39 contains two arginines in the polar side chains, which may have contributed to the interaction between the mineral targets. Immunofluorescence assays identified that the peptide's affinity was strong for Y2 O3 and negligible to LaPO4 :Ce3+ ,Tb3+ . The identification of a peptide with high specificity and affinity for Y2 O3 provides a potentially new strategic approach to recycle this type of material from secondary sources, especially from electronic scrap.

Enhancing charge transport in isoindigo-based donor–acceptor copolymers by combining ionic doping with polar alkoxy side chains

Side chains of polymers play a crucial role in manipulating polymer interchain interactions, especially polar side chains that promote strong molecular stacking and facilitate ionic diffusion.

Controlling conjugated polymer morphology by precise oxygen position in single-ether side chains.

Recently, polar side chains have emerged as a functional tool to enhance conjugated polymer doping properties by improving the polymer miscibility with polar chemical dopants and facilitate solvated ion uptake. In this work, we design and investigate a novel family of side chains containing a single ether function, enabling the modulation of the oxygen atom position along the side chain. A meticulous investigation of this new polymer series by differential scanning calorimetry, fast scanning chip calorimetry and X-ray scattering shows that polymers bearing single-ether side chains can show high degree of crystallinity under proper conditions. Importantly, due to a gauche effect allowing the side chain to bend at the oxygen atom, the degree of crystallinity of polymers can be controlled by the position of the oxygen atom along the side chain. The further the oxygen atom is from the conjugated backbone, the more crystalline the polymer becomes. In addition, for all new polymers, high thermomechanical properties are demonstrated, leading to remarkable electrical conductivities and thermoelectric power factors in rub-aligned and sequentially doped thin films. This work confirms the potential of single-ether side chains to be used as polar solubilizing side chains for the design of a next generation of p- and n-type semiconducting polymers with increased affinity to polar dopants while maintaining high molecular order.

Contrasting interchain order and mixed ionic–electronic conduction in conjugated polymers: an isoindigo case study

Using isoindigo-based polymers, this study investigates mixed ionic–electronic conduction in highly ordered conjugated polymers by systematically incorporating polar side chains, which promote ion insertion while preserving interchain stacking.

Elucidating Oxygen Reduction Mechanisms on Organic Mixed Ionic-Electronic Conducting Polymers

Atmospheric oxygen is an attractive oxidant for the generation of electricity from chemical fuels and for the electrochemical production of hydrogen peroxide. Although not universal, it is generally assumed that an electrocatalyst is needed to reduce oxygen. Recently, a variety of organic mixed ionic-electronic conducting polymers (OMIECs) have been reported to exhibit catalytic behavior for both the 4-electron/4-proton and the 2-electron/2-proton oxygen reduction reaction (ORR).This work sets out to identify the oxygen reduction mechanism of OMIECs through a multi-faceted experimental and theoretical approach. We primarily focus our efforts on p(NDI-T2 P75)—a random copolymer comprised of naphthalene diimide (NDI) and bithiophene (T2) units with 75% polar sidechains—and then expand the understanding built on this system to a range of other OMIECs. Using rotating ring disk electrochemistry, we find that the investigated OMIECs exhibit a high selectivity towards the 2-electron ORR product. Using operando UV-Vis and Raman spectroscopy measurements, we identify changes in OMIEC performance when in the presence of O2. To gain further insights about the catalytic reaction path, we construct and test a microkinetic model. Through this model, we show that the performance of the tested OMIECs can be rationalized through an EC’D reaction mechanism. Our results suggest that these materials do not operate as electrocatalysts for the initial reduction of oxygen to superoxide but do function as catalysts for the disproportionation of superoxide.

Side-Selective Solid-Phase Metallaphotoredox N(in)-Arylation of Peptides.

Postsynthetic diversification of peptides through selective modification of endogenous amino acid side chains has enabled significant advances in peptide drug discovery while expanding the biological and medical chemistry space. However, current tools have been focused on the modification of reactive polar and ionizable side chains, whereas the decoration of aromatic systems (e.g., the N(in) of the tryptophan) has been a long-standing challenge. Here, we introduce metallaphotocatalysis in solid-phase peptide synthesis for the on-resin orthogonal N-arylation of relevant tryptophan-containing peptides. The protocol allows the chemoselective introduction of a new C(sp2)-N bond at the N(in) of tryptophan in biologically active protected peptide sequences in the presence of native redox-sensitive side chains. The fusion of metallaphotocatalysis with solid-phase peptide synthesis opens new perspectives in diversifying native amino acid side chains.

Novel Indane-Containing NBTIs with Potent Anti-Gram-Negative Activity and Minimal hERG Inhibition.

Novel bacterial topoisomerase inhibitors (NBTIs) make up a promising new class of antibiotics with the potential to combat the growing threat of antimicrobial resistance. Two key challenges in the development of NBTIs have been to obtain broad spectrum activity against multidrug-resistant Gram-negative bacteria and to diminish inhibition of the hERG cardiac ion channel. Here we report the optimization of a series of NBTIs bearing a novel indane DNA intercalating moiety. The addition of a basic, polar side chain connected to the indane by an ether or an N-linked secondary amide linkage together with a lipophilicity-lowering modification of the enzyme binding moiety led to compounds such as 2a and 2g which showed excellent broad spectrum potency and minimal hERG inhibition. Compound 2a demonstrated robust bactericidal in vivo activity in a mouse lung infection model with the strain P. aeruginosa ATCC 27853 which is resistant to several clinically relevant antibiotics. Rodent pharmacokinetic studies with 2a revealed an unusual profile characterized by rapid tissue distribution and a prolonged, flat terminal phase. This profile precluded further development of these compounds as potential new antibiotics.

Polymer-Based Thermally Stable Chemiresistive Sensor for Real-Time Monitoring of NO2 Gas Emission.

We present a thermally stable, mechanically compliant, and sensitive polymer-based NO2 gas sensor design. Interconnected nanoscale morphology driven from spinodal decomposition between conjugated polymers tethered with polar side chains and thermally stable matrix polymers offers judicious design of NO2-sensitive and thermally tolerant thin films. The resulting chemiresitive sensors exhibit stable NO2 sensing even at 170 °C over 6 h. Controlling the density of polar side chains along conjugated polymer backbone enables optimal design for coupling high NO2 sensitivity, selectivity, and thermal stability of polymer sensors. Lastly, thermally stable films are used to implement chemiresistive sensors onto flexible and heat-resistant substrates and demonstrate a reliable gas sensing response even after 500 bending cycles at 170 °C. Such unprecedented sensor performance as well as environmental stability are promising for real-time monitoring of gas emission from vehicles and industrial chemical processes.

Probing the substrate binding modes and catalytic mechanisms of BLEG-1, a promiscuous B3 metallo-β-lactamase with glyoxalase II properties.

BLEG-1 from Bacillus lehensis G1 is an evolutionary divergent B3 metallo-β-lactamase (MBL) that exhibited both β-lactamase and glyoxalase II (GLXII) activities. Sequence, phylogeny, biochemical and structural relatedness of BLEG-1 to B3 MBL and GLXII suggested BLEG-1 might be an intermediate in the evolutionary path of B3 MBL from GLXII. The unique active site cavity of BLEG-1 that recognizes both β-lactam antibiotics and S-D-lactoylglutathione (SLG) had been postulated as the key factor for its dual activity. In this study, dynamic ensembles of BLEG-1 and its substrate complexes divulged conformational plasticity and binding modes of structurally distinct substrates to the enzyme, providing better insights into its structure-to-function relationship and enzymatic promiscuity. Our results highlight the flexible nature of the active site pocket of BLEG-1, which is governed by concerted loop motions involving loop7+α3+loop8 and loop12 around the catalytic core, thereby moulding the binding pocket and facilitate interactions of BLEG-1 with both ampicillin and SLG. The distribution of (i) predominantly hydrophobic amino acids in the N-terminal domain, and (ii) flexible amino acids with polar and/or charged side chains in both N- and C-termini provide additional advantages to BLEG-1 in confining the aromatic group of ampicillin, and polar groups of SLG, respectively. The importance of these residues for substrates binding was further confirmed by the reduction in MBL and GLXII activities upon alanine substitutions of Ile-10, Phe-57, Arg-94, Leu-95, and Arg-159. Based on molecular dynamics simulation, mutational, and biochemical data presented herein, the catalytic mechanisms of BLEG-1 toward the hydrolysis of β-lactams and SLG were proposed.

Asymmetric Synthesis of Functionalizable Type II β-Turn-Inducing α-Amino Acid Building Blocks.

Peptidomimetics are emerging as a promising class of potent and selective therapeutics. Among the current approaches to these compounds, the utilization of constrained lactams is a key element in enforcing the active peptide conformation, and the development of efficient and stereocontrolled methods for generating such lactam building blocks is an important objective. Current methods typically rely on the elaboration of existing α-amino acids, and in so doing, the side chain is sacrificed during the ring-forming process. We report a new asymmetric approach to lactam-constrained α-amino acid building blocks bearing a range of polar and hydrophobic side chains. The chemistry is amenable to rapidly generating di- and tripeptides, and the potential for these lactams to stabilize type II β-turns is demonstrated in the synthesis of the melanocyte-inhibiting factor peptidomimetic.

SARS-CoV-2 fusion peptide sculpting of a membrane with insertion of charged and polar groups

The fusion peptide of SARS-CoV-2 spike is essential for infection. How this charged and hydrophobic domain occupies and affects membranes needs clarification. Its depth in zwitterionic, bilayered micelles at pH 5 (resembling late endosomes) was measured by paramagnetic NMR relaxation enhancements used to bias molecular dynamics simulations. Asp830 inserted deeply, along with Lys825 or Lys835. Protonation of Asp830 appeared to enhance agreement of simulated and NMR-measured depths. While the fusion peptide occupied a leaflet of the DMPC bilayer, the opposite leaflet invaginated with influx of water and choline head groups in around Asp830 and bilayer-inserted polar side chains. NMR-detected hydrogen exchange found corroborating hydration of the backbone of Thr827-Phe833 inserted deeply in bicelles. Pinching of the membrane at the inserted charge and the intramembrane hydration of polar groups agree with theory. Formation of corridors of hydrated, inward-turned head groups was accompanied by flip-flop of head groups. Potential roles of the defects are discussed.

Electromembrane extraction of peptides based on hydrogen bond interactions

BackgroundElectromembrane extraction (EME) of peptides reported in the scientific literature involve transfer of net positively charged peptides from an aqueous sample, through a liquid membrane, and into an aqueous acceptor solution, under the influence of an electrical field. The liquid membrane comprises an organic solvent, containing an ionic carrier. The purpose of the ionic carrier is to facilitate peptide solvation in the organic solvent based on ionic interactions. Unfortunately, ionic carriers increase the conductivity of the liquid membrane; the current in the system increases, the electrolysis in sample and acceptor is accelerated, and the extraction system tend to be unstable and suffers from drifting pH. ResultsIn the present work, a broad selection of organic solvents were tested as pure liquid membrane for EME of peptides, without ionic carrier. Several phosphates provided high mass transfer, and tri(pentyl) phosphate was selected since this solvent also provided high operational stability. Among 16 different peptides used as model analytes, tri(pentyl) phosphate extracted those with net charge +1 and with no more than two polar side chains. Tri(pentyl) phosphate served as a very strong hydrogen bond acceptor, while the protonated peptides were hydrogen bond donors. By such, hydrogen bonding served as the primary interactions responsible for mass transfer. Tri(pentyl) phosphate as liquid membrane, could exhaustively extract leu-enkephalin, met-enkephalin, and endomorphin from human blood plasma and detected by LC-MS/MS. Calibration curves were linear (r2 > 0.99) within a concentration range from 1 to 500 ng/mL, and a relative standard deviation within 12% was observed for precision studies. SignificanceThe current experiments are important because they indicate that small peptides of low polarity may be extracted selectively in EME based on hydrogen bond interactions, in systems not suffering from electrolysis.

Transient water wires mediate selective proton transport in designed channel proteins.

Selective proton transport through proteins is essential for forming and using proton gradients in cells. Protons are conducted along hydrogen-bonded 'wires' of water molecules and polar side chains, which, somewhat surprisingly, are often interrupted by dry apolar stretches in the conduction pathways, inferred from static protein structures. Here we hypothesize that protons are conducted through such dry spots by forming transient water wires, often highly correlated with the presence of the excess protons in the water wire. To test this hypothesis, we performed molecular dynamics simulations to design transmembrane channels with stable water pockets interspersed by apolar segments capable of forming flickering water wires. The minimalist designed channels conduct protons at rates similar to viral proton channels, and they are at least 106-fold more selective for H+ over Na+. These studies inform the mechanisms of biological proton conduction and the principles for engineering proton-conductive materials.