Van Der Waals Contacts Research Articles

Identification of novel proteolytically inactive mutations in coronavirus 3C-like protease using a combined approach.

Coronaviruses (CoVs) infect humans and multiple other animal species, causing highly prevalent and severe diseases. 3C-like proteases (3CLpros) from CoVs (also called main proteases) are essential for viral replication and are also involved in polyprotein cleavage and immune regulation, making them attractive and effective targets for the development of antiviral drugs. Herein, the 3CLpro from the porcine epidemic diarrhea virus, an enteropathogenic CoV, was used as a model to identify novel crucial residues for enzyme activity. First, we established a rapid, sensitive, and efficient luciferase-based biosensor to monitor the activity of PDEV 3CLproin vivo. Using this luciferase biosensor, along with confirming the well-known catalytic residues (His41 and Cys144), we identified 4 novel proteolytically inactivated mutants of PDEV 3CLpro, which was also confirmed in mammalian cells by biochemical experiments. Our molecular dynamics (MD) simulations showed that the hydrogen bonding interactions occurring within and outside of the protease's active site and the dynamic fluctuations of the substrate, especially the van der Waals contacts, were drastically altered, a situation related to the loss of 3CLpro activity. These data suggest that changing the intermolecular dynamics in protein-substrate complexes eliminates the mechanism underlying the protease activity. The discovery of novel crucial residues for enzyme activity in the binding pocket could potentially provide more druggable sites for the design of protease inhibitors. In addition, our in-depth study of the dynamic substrate's envelope model using MD simulations is an approach that could augment the discovery of new inhibitors against 3CLpro in CoVs and other viral 3C proteases.-Zhou, J., Fang, L., Yang, Z., Xu, S., Lv, M., Sun, Z., Chen, J., Wang, D., Gao, J., Xiao, S. Identification of novel proteolytically inactive mutations in coronavirus 3C-like protease using a combined approach.

Designing Non‐Centrosymmetric Molecular Crystals: Optimal Packing May Be Just One Carbon Away

AbstractMolecular nonlinear optical (NLO) crystals feature important advantages compared to inorganic counterparts, such as low dielectric constants, ultrafast response times, and large electro‐optic coefficients. Conjugated push–pull chromophores connecting electron‐donating with accepting groups are often employed in the design of these crystals. However, associated large molecular dipole moments induce antiparallel or centrosymmetric conformations in the solid‐state, which leads to NLO inactivity. The cation–anion hydrogen bond interactions of a hydroxy‐piperidino electron donor group are combined with increased van der Waals volume effects induced by an ethyl modification of the electron‐accepting moiety. This produces non‐centrosymmetric packing in the organic salt EHPSI‐4NBS ((E)‐1‐ethyl‐2‐(4‐(4‐(hydroxymethyl)piperidin‐1‐yl)styryl)‐3,3‐dimethyl‐3H‐indol‐1‐ium 4‐nitrobenzenesulfonate). Converting a methyl group into ethyl changes the packing symmetry in the molecular crystal to switch on NLO activity. This behavior is attributed to the increased size of the ethyl group, which pushes apart the van der Waals contacts of the cation that lead to centrosymmetric packing in the methyl derivative. To test the NLO properties of EHPSI‐4NBS, THz generation experiments are performed at 1200 nm pump wavelength. Spectral amplitude similar to DAST ((E)‐4‐(4‐(dimethylamino)styryl)‐1‐methylpyridin‐1‐ium tosylate) crystal is observed with generation profile from 0 to 3.8 THz.

Comprehensive insights into effect of van der Waals contact on carbon nanotube network field-effect transistors

The fermi-level pinning effect caused by low-order contact interface influences the performance of carbon nanotube (CNT) network field-effect transistors (FETs). In this paper, ambipolar CNT network FETs subjected to van der Waals (vdW) contact are demonstrated with the negligible Fermi-level pinning effect by using a physical transfer approach. The vdW contact method allows for the metal and CNT network to retain their intrinsic states without direct chemical bonding and interface interactions, leading to low injection barrier and contact resistance (Rc). Therefore, the field-effect mobilities of vdW metal-semiconductor (MS) contact devices in regions of dominance of the holes (μp) and electrons (μn) were 18.71 and 2.4 cm2 V−1 s−1 and yielded enhancements 2 and 10 times, respectively, beyond those of devices with typically evaporated electrodes. In addition, to develop ambipolar devices with balanced output capability, two-dimensional materials (h-BN and graphene) were inserted into the MS interface to tune the injection barrier. Because the metal work function was effectively reduced by inserting the h-BN layer, devices with h-BN inserted obtained values of μp and μn of 15.85 and 5.1 cm2 V−1 s−1, respectively. For devices with graphene, because of its field-modulated band alignment capability, μn improved to 8.38 cm2 V−1 s−1, while μp dropped slightly to 17.5 cm2 V−1 s−1. Therefore, the vdW contact method is a highly efficient integration strategy for high-performance CNT network FETs, and the different insertion layers can efficiently tune the ambipolar transportation of CNT network FETs rather than using different contact metals. This research provides an avenue for the design of future CNT network-based electronics.

In silico Identification of High-Affinity Ligands of the Hiv-1 Gp120 Protein, Potential Peptidomimetics of Neutralizing Antibody N6

Six potential peptidomimetics of the cross-reactive neutralizing anti-HIV-1 antibody N6 that are able to mimic the pharmacophoric features of this immunoglobulin by specific and effective interactions with the CD4-binding site of the viral gp120 protein were identified by virtual screening and molecular modeling. The key role in the interaction of these compounds with gp120 is shown to play multiple van der Waals contacts with conserved residues of the gp120 Phe-43 cavity critical for the HIV binding to cellular receptor CD4, as well as hydrogen bond with Asp-368gp120 that increase the chemical affinity without activating unwanted allosteric effect. According to the data of molecular dynamics, the complexes of the identified ligands with gp120 are energetically stable and show the lower values of binding free energy compared with the HIV-1 inhibitors NBD-11021 and DMJ-II-121 used in the calculations as a positive control. Based on the data obtained, it was concluded that the identified compounds may be considered as promising candidates for detailed experimental studies to their further use in the design of novel antiviral drugs presenting HIV-1 inhibitors that block the early stages of the development of HIV infection.

Crystal Structure Evidence for the Directionality of Lone Pair−π interactions: Fact or Fiction?

The location of intermolecular lone pair atom contacts with C6F5X, where X = any atom, was evaluated using the Cambridge Structural Database (CSD). The results establish that it is not possible to distinguish the distribution of lone pair atoms in contact with this arene surface from an isotropic distribution of van der Waals contacts. In other words, the CSD provides no evidence for either the directionality or the existence of the lone pair−π interaction with this electron-deficient arene. The current findings are in stark contrast to prior reports that crystal structure data provide (i) examples of lone pair−π interactions and (ii) evidence that lone pair−π interactions are strongly directional. Examination of the previous CSD analyses reveals that in every case the data had been misinterpreted. The most common mistake involves using search criteria to select subsets of contacts and then attaching significance to these selected contacts without the context of the entire contact distribution.

The Trials and Tribulations of Structure Assisted Design of KCa Channel Activators.

Calcium-activated K+ channels constitute attractive targets for the treatment of neurological and cardiovascular diseases. To explain why certain 2-aminobenzothiazole/oxazole-type KCa activators (SKAs) are KCa3.1 selective we previously generated homology models of the C-terminal calmodulin-binding domain (CaM-BD) of KCa3.1 and KCa2.3 in complex with CaM using Rosetta modeling software. We here attempted to employ this atomistic level understanding of KCa activator binding to switch selectivity around and design KCa2.2 selective activators as potential anticonvulsants. In this structure-based drug design approach we used RosettaLigand docking and carefully compared the binding poses of various SKA compounds in the KCa2.2 and KCa3.1 CaM-BD/CaM interface pocket. Based on differences between residues in the KCa2.2 and KCa.3.1 models we virtually designed 168 new SKA compounds. The compounds that were predicted to be both potent and KCa2.2 selective were synthesized, and their activity and selectivity tested by manual or automated electrophysiology. However, we failed to identify any KCa2.2 selective compounds. Based on the full-length KCa3.1 structure it was recently demonstrated that the C-terminal crystal dimer was an artefact and suggested that the “real” binding pocket for the KCa activators is located at the S4-S5 linker. We here confirmed this structural hypothesis through mutagenesis and now offer a new, corrected binding site model for the SKA-type KCa channel activators. SKA-111 (5-methylnaphtho[1,2-d]thiazol-2-amine) is binding in the interface between the CaM N-lobe and the S4-S5 linker where it makes van der Waals contacts with S181 and L185 in the S45A helix of KCa3.1.

Virtual screening and identification of potential HIV-1 inhibitors based on the cross-reactive neutralizing antibody N6

Six potential peptidomimetics of the cross-reactive neutralizing anti-HIV-1 antibody N6 that are able to mimic the pharmacophoric features of this immunoglobulin by specific and effective interactions with the CD4-binding site of the viral gp120 protein were identified by virtual screening and molecular modeling. The key role in the interaction of these compounds with gp120 is shown to play multiple van der Waals contacts with conserved residues of the gp120 Phe43 cavity critical for the HIV binding to cellular receptor CD4, as well as hydrogen bonds with Asp-368gp120 that increase the chemical affinity without activating unwanted allosteric effect. According to the data of molecular dynamics, the complexes of the identified ligands with gp120 are energetically stable and show the lower values of binding free energy compared with the HIV-1 inhibitors NBD-11021 and DMJ-II-121 used in the calculations as a positive control. The identified compounds may be involved in the design of novel antiviral drugs presenting HIV-1 inhibitors that block the early stages of the development of HIV infection.

Structural Characterization of Agonist Binding to an A3 Adenosine Receptor through Biomolecular Simulations and Mutagenesis Experiments.

The adenosine A3 receptor (A3R) binds adenosine and is a drug target against cancer cell proliferation. Currently, there is no experimental structure of A3R. Here, we have generated a molecular model of A3R in complex with two agonists, the nonselective 1-(6-amino-9H-purin-9-yl)-1-deoxy-N-ethyl-β-d-ribofuranuronamide (NECA) and the selective 1-deoxy-1-[6-[[(3-iodophenyl)methyl]amino]-9H-purin-9-yl]-N-methyl-β-d-ribofuranuronamide (IB-MECA). Molecular dynamics simulations of the wild-type A3R in complex with both agonists, combined with in vitro mutagenic studies revealed important residues for binding. Further, molecular mechanics-generalized Born surface area calculations were able to distinguish mutations that reduce or negate agonistic activity from those that maintained or increased the activity. Our studies reveal that selectivity of IB-MECA toward A3R requires not only direct interactions with residues within the orthosteric binding area but also with remote residues. Although V1695.30 is considered to be a selectivity filter for A3R binders, when it was mutated to glutamic acid or alanine, the activity of IB-MECA increased by making new van der Waals contacts with TM5. This result may have implications in the design of new A3R agonists.

Probing the side chain tolerance for inhibitors of the CD95/PLCγ1 interaction.

Proceeding our effort to study protein-protein interaction between the death receptor CD95 and phospholipase PLCγ1, we present in the current work chameleon-like traits of peptidomimetic inhibitors. Minute analysis of the interaction suggests that most of the binding energy relies on van der Waals contacts rather than more specific features, such as hydrogen bonds or salt bridges. The two most important positions of the peptoid for its interaction with PLCγ1 (Arg184 and Arg187) were modified to test this hypothesis. While Arg184 proves to be exchangeable for Trp, with no alteration in affinity, the nature of the amino acid replacing Arg187 is more dependent on its positive charge. However, affinity can be partially recovered by increasing van der Waals interactions. Overall, this study shows that for both positions, a subtle balance exists between hydrophobicity, surface contacts and affinity for CD95/PLCγ1, and provides information for the generation of new therapeutic compounds toward this druggable target.

Click chemistry in silico, docking, quantum chemical calculations, and molecular dynamics simulations to identify novel 1,2,4-triazole-based compounds as potential aromatase inhibitors

Computational development of novel triazole-based aromatase inhibitors (AIs) was carried out followed by investigation of the possible interaction modes of these compounds with the enzyme and prediction of the binding affinity by tools of molecular modeling. In doing so, in silico design of potential AIs candidates fully satisfying the Lipinski’s “rule of five” was performed using the concept of click chemistry. Complexes of these drug-like molecules with the enzyme were then simulated by molecular docking and optimized by semiempirical quantum chemical method PM7. To identify the most promising compounds, stability of the PM7-based ligand/aromatase structures was estimated in terms of the values of binding free energies and dissociation constants. At the final stage, structures of the top ranking compounds bound to aromatase were analyzed by molecular dynamic simulations and binding free energy calculations. As a result, eight hits that specifically interact with the aromatase catalytic site and exhibit the high-affinity ligand binding were selected for the final analysis. Six of eight compounds are shown to coordinate the aromatase heme group by the nitrogen–heme–iron interaction typical for triazole-based molecules. At the same time, two compounds form a coordination bond with the heme iron of the enzyme via the lone-pair electrons of their oxygen atoms, which is uncharacteristic for molecules with triazole moieties. All the identified compounds are also involved in multiple van der Waals contacts with the critically important residues of the enzyme hydrophobic pocket, such as Arg-115, Ile-133, Phe-134, Trp-224, Thr-310, Val-370, Met-374, Leu-477, and Ser-478. In addition, most of these compounds form hydrogen bond with Met-374 mimicking the interaction of aromatase with the natural substrate androstenedione, and individual ligands participate in specific π- or T-stacking interactions with the pyrrole rings of the enzyme heme group as well as in hydrogen bonding with Thr-310, Leu-372, Leu-477, and Ser-478. The selected AIs candidates show strong attachment to the enzyme active site, in line with the low values of dissociation constant and binding free energy. Taken together, the data obtained suggest that the identified compounds may present good scaffolds for the development of novel potent drugs against breast cancer.

Conformational transitions of the quercetin molecule via the rotations of its rings: a comprehensive theoretical study

Quercetin is an important flavonoid compound, usually extracted from plants, vegetables and fruits such as blueberries, apples, green tea, wine, onions and possessing broad range of pharmacological properties, in particular, powerful antioxidant, antitoxic, antiinflammation and antimicrobial effects due to its various reactive sites. The structure of this phenolic compound consists of three (A + C) and B rings, bearing five hydroxyl groups. Primarily, the chemical structure of quercetin determines its physico-chemical properties. Earlier, it was established that isolated quercetin molecule can acquire 48 stable conformations (24 planar and 24 non-planar) due to the mobility of its hydroxyl groups and (A + C) and B rings with relative Gibbs free energies in the range of 0.0–25.3 kcal·mol−1 under normal conditions (Brovarets’ et al., 2019c). In this work by quantum-mechanical calculations at the MP2/6-311++G(2df,pd)//B3LYP/6-311++G(d,p) level of theory and Bader’s ‘Quantum Theory of Atoms in Molecules’, we have theoretically modeled the interconversions in the 24 pairs of the conformers of the quercetin molecule, occuring via the rotation of its non-deformable (A+С) and B rings around the С2-С1' bond through the quasi-orthogonal transition state with low values of the imaginary frequencies (28–33/29–36 cm−1) and Gibbs free energies of activation in the range of 2.17–5.68/1.86–4.90 kcal·mol−1 in the continuum with dielectric permittivity ε = 1/ε = 4 under normal conditions. Also, we studied the changes of the number of physico-chemical characteristics of all intramolecular-specific contacts – hydrogen bonds and attractive van der Waals contacts during these conformational rearrangements.Communicated by Ramaswamy H. Sarma

Time-Dependent Growth of Gold Nanoparticles: Experimental Correlation of van der Waals Contact between DNA and Amino Acids with Polar Uncharged Side Chains

Time-dependent investigation of growth reactions from 0.45 nM gold nanoparticle seeds in the presence of 9 mM amino acids containing polar uncharged side chain (AApusc) serine (Ser), threonine (Thr...

1-nm-Wide Hydrated Dipole Arrays Regulate AuNW Assembly on Striped Monolayers in Nonpolar Solvent

Summary We show that striped phases of horizontally oriented phospholipids presenting 1-nm-wide orientable dipole arrays can order and straighten flexible 2-nm-diameter gold nanowires (AuNWs) with lengths (up to 1 μm) that greatly exceed the template pitch (∼7.5 nm). AuNW ordering can extend over areas > 100 μm2. Whereas wires bundle in solution, with contact between ligand shells, wires adsorbing to the template separate to much larger center-to-center distances (e.g., 12–30 nm) near multiples of the template pitch, consistent with repulsive interactions between wires emerging during interactions with dipole arrays in the template. AuNW assembly was carried out in cyclohexane, a nonpolar solvent. Interestingly, we found that wire ordering was contingent on the extent of phospholipid headgroup hydration and the presence of excess oleylamine, which assembled into hemicylindrical micelles around the hydrated headgroups. Together, these components generated a protected polar environment that enabled the phospholipid headgroups to function collectively to regulate AuNW assembly.

Spin-orbit-driven band inversion in bilayer graphene by the van der Waals proximity effect.

Spin-orbit coupling (SOC) is the key to realizing time-reversal-invariant topological phases of matter1,2. SOC was predicted by Kane and Mele3 to stabilize a quantum spin Hall insulator; however, the weak intrinsic SOC in monolayer graphene4-7 has precluded experimental observation in this material. Here we exploit a layer-selective proximity effect-achieved via a van der Waals contact with a semiconducting transition-metal dichalcogenide8-21-to engineer Kane-Mele SOC in ultra clean bilayer graphene. Using high-resolution capacitance measurements to probe the bulk electronic compressibility, we find that SOC leads to the formation of a distinct, incompressible, gapped phase at charge neutrality. The experimental data agree quantitatively with a simple theoretical model in which the new phase results from SOC-driven band inversion. In contrast to Kane-Mele SOC in monolayer graphene, the inverted phase is not expected to be a time-reversal-invariant topological insulator, despite being separated from conventional band insulators by electric-field-tuned phase transitions where crystal symmetry mandates that the bulk gap must close22. Our electrical transport measurements reveal that the inverted phase has a conductivity of approximately e2/h (where e is the electron charge and h Planck's constant), which is suppressed by exceptionally small in-plane magnetic fields. The high conductivity and anomalous magnetoresistance are consistent with theoretical models that predict helical edge states within the inverted phase that are protected from backscattering by an emergent spin symmetry that remains robust even for large Rashba SOC. Our results pave the way for proximity engineering of strong topological insulators as well as correlated quantum phases in the strong spin-orbit regime in graphene heterostructures.

Extreme divergence between one-to-one orthologs: the structure of N15 Cro bound to operator DNA and its relationship to the λ Cro complex

The gene cro promotes lytic growth of phages through binding of Cro protein dimers to regulatory DNA sites. Most Cro proteins are one-to-one orthologs, yet their sequence, structure and binding site sequences are quite divergent across lambdoid phages. We report the cocrystal structure of bacteriophage N15 Cro with a symmetric consensus site. We contrast this complex with an orthologous structure from phage λ, which has a dissimilar binding site sequence and a Cro protein that is highly divergent in sequence, dimerization interface and protein fold. The N15 Cro complex has less DNA bending and smaller DNA-induced changes in protein structure. N15 Cro makes fewer direct contacts and hydrogen bonds to bases, relying mostly on water-mediated and Van der Waals contacts to recognize the sequence. The recognition helices of N15 Cro and λ Cro make mostly nonhomologous and nonanalogous contacts. Interface alignment scores show that half-site binding geometries of N15 Cro and λ Cro are less similar to each other than to distantly related CI repressors. Despite this divergence, the Cro family shows several code-like protein–DNA sequence covariations. In some cases, orthologous genes can achieve a similar biological function using very different specific molecular interactions.

Crystal structure of zymonic acid and a redetermination of its precursor, pyruvic acid.

The structure of zymonic acid (systematic name: 4-hy-droxy-2-methyl-5-oxo-2,5-di-hydro-furan-2-carb-oxy-lic acid), C6H6O5, which had previously eluded crystallographic determination, is presented here for the first time. It forms by intra-molecular condensation of parapyruvic acid, which is the product of aldol condensation of pyruvic acid. A redetermination of the crystal structure of pyruvic acid (systematic name: 2-oxo-propanoic acid), C3H4O3, at low temperature (90 K) and with increased precision, is also presented [for the previous structure, see: Harata et al. (1977 ▸). Acta Cryst. B33, 210-212]. In zymonic acid, the hy-droxy-lactone ring is close to planar (r.m.s. deviation = 0.0108 Å) and the dihedral angle between the ring and the plane formed by the bonds of the methyl and carb-oxy-lic acid carbon atoms to the ring is 88.68 (7)°. The torsion angle of the carb-oxy-lic acid group relative to the ring is 12.04 (16)°. The pyruvic acid mol-ecule is almost planar, having a dihedral angle between the carb-oxy-lic acid and methyl-ketone groups of 3.95 (6)°. Inter-molecular inter-actions in both crystal structures are dominated by hydrogen bonding. The common R 2 2(8) hydrogen-bonding motif links carb-oxy-lic acid groups on adjacent mol-ecules in both structures. In zymonic acid, this results in dimers about a crystallographic twofold of space group C2/c, which forces the carb-oxy-lic acid group to be disordered exactly 50:50, which scrambles the carbonyl and hydroxyl groups and gives an apparent equalization of the C-O bond lengths [1.2568 (16) and 1.2602 (16) Å]. The other hydrogen bonds in zymonic acid (O-H⋯O and weak C-H⋯O), link mol-ecules across a 21-screw axis, and generate an R 2 2(9) motif. These hydrogen-bonding inter-actions propagate to form extended pleated sheets in the ab plane. Stacking of these zigzag sheets along c involves only van der Waals contacts. In pyruvic acid, inversion-related mol-ecules are linked into R 2 2(8) dimers, with van der Waals inter-actions between dimers as the only other inter-molecular contacts.

Highly Drug-Resistant HIV-1 Protease Mutant PRS17 Shows Enhanced Binding to Substrate Analogues.

We report the structural analysis of highly drug-resistant human immunodeficiency virus protease (PR) variant PRS17, rationally selected by machine learning, in complex with substrate analogues. Crystal structures were solved of inhibitor-free inactive PRS17-D25N, wild-type PR/CA-p2 complex, and PRS17 in complex with substrate analogues, CA-p2 and p2-NC. Peptide analogues p2-NC and CA-p2 exhibit inhibition constants of 514 and 22 nM, respectively, for PRS17 or approximately 3-fold better than for PR. CA-p2 is a better inhibitor of PRS17 than are clinical inhibitors (Ki = 50–8390 nM) except for amprenavir (Ki = 11 nM). G48V resistance mutation induces curled flap tips in PRS17-D25N structure. The inner P2–P2′ residues of substrate analogues in PRS17 complexes maintain similar conformations to those of wild-type complex, while significant conformational changes are observed in the peripheral residues P3, P4′ of CA-p2 and P3, P4, and P3′ of p2-NC. The loss of β-branched side chain by V82S mutation initiates a shift in 80’s loop and reshapes the S3/S3′ subsite, which enhances substrate binding with new hydrogen bonds and van der Waals interactions that are absent in the wild-type structures. The steric hindrance caused by G48V mutation in the flap of PRS17 contributes to altered binding interactions of P3 Arg, P4′ norleucine of CA-p2, and P4 and P3′ of p2-NC with the addition of new hydrogen bonds and van der Waals contacts. The enhanced interaction of PRS17 with substrate analogues agrees with their relative inhibition, suggesting that this mutant improves substrate binding while decreasing affinity for clinical inhibitors.

Tweaking the affinity of aryl‐substituted diazosalicylato‐ and pyridine ligands towards Zn (II) and its neighbors in the periodic system of the elements, Cu (II) and Cd (II), and their antimicrobial activity

A series of six new Zn (II) compounds, viz., [Zn(HLASA)2(Py)2] (1), [Zn(HLMASA)2(Py)2] (2), [Zn(HLMASA)2(4‐MePy)2] (3), [Zn(HLCASA)2(4‐MePy)2] (4), [Zn(HLBASA)2(Py)2] (5), [Zn(HLBASA)2(4‐MePy)2] (6) and representative Cu (II) and Cd (II) complexes, viz., [Cu(HLASA)2(Py)2(H2O)] (7) and [Cd(HLBASA)2(Py)3] (8) [(HLXASA)− = para‐substituted 5‐[(E)‐2‐(aryl)‐1‐diazenyl]‐2‐hydroxybenzoate with X = H (ASA), Me (MASA), Cl (CASA) or Br (BASA); Py = pyridine; 4‐MePy = 4‐methylpyridine] have been synthesized and characterized by spectroscopic techniques and single‐crystal X‐ray diffraction analysis. The structural characterization of the compounds revealed distorted tetrahedral (1–6), square‐pyramidal (7) and pentagonal‐bipyramidal (8) coordination geometries around the metal atom, in which the aryl‐substituted diazosalicylate ligands are coordinated only through the oxygen atoms of carboxylate groups, either in an anisobidentate or isobidentate mode; meanwhile, the 2‐hydroxy groups of the monoanionic ligand (HLXASA)− are involved only in intramolecular O‐H···O hydrogen bonds with the carboxylate function. In the crystal structures of 1–8, the complex molecules are assembled by π‐stacking interactions giving mostly infinite 1D strands. The intermolecular binding in the solid state structures is accomplished by diverse additional non‐covalent contacts including C‐H···O, C‐H···N, C‐H···π, C‐H···Br, O···Br, Br···π and van der Waals contacts. Although the primary and secondary ligands in the Zn (II) complex series 1–6 carry different substituents at the periphery (X = H, Me, Cl, Br for (HLXASA)− and R = H, Me for 4‐Py‐R), five of the crystal structures were isostructural. Additionally, the antimicrobial activity of the pro‐ligands H2LXASA and their Zn (II), Cu (II) and Cd (II) compounds were studied in a comparative manner, showing high sensitivity (IZD ≥ 20) against Bacillus subtilis.

Tuning Charge Generation Process of Rylene Imide-Based Solar Cells via Chalcogen-Atom-Annulation

A series of high-performance organic semiconductors, which are modulated by introducing heteroatoms to rationally control molecular packing and charge carrier transport, have been successfully reported. However, a fundamental physical understanding of the impact of chalcogen atoms on intermolecular interactions between donors and acceptors as well as photophysical process in photovoltaic cells is still lagging. Herein, a detailed investigation on rylene imide-based solar cells is carried out to reveal the role of chalcogen atoms in controlling intermolecular interactions, molecular orientation in bulk and at the donor–acceptor interface, and polaron-pair dissociation. Compared to their Se-atom-free assisted counterparts, poly{[4,8-bis[5-(2-ethylhexyl)-4-fluoro-2-thienyl]benzo[1,2-b:4,5-b′]dithiophene2,6-diyl]-alt-[2,5-thiophenediyl[5,7-bis(2-ethylhexyl)-4,8-dioxo-4H,8H-benzo[1,2-c:4,5-c′]dithiophene-1,3-diyl]]} (PBDB-TF): selenium-annulated triperylene hexaimide (TPH-Se) bulk heterojunctions preserve face-on orientation and possess smaller domain size, which are partially attributed to the Se···O van der Waals contacts between the acceptor and polymer chain. This feature enables PBDB-TF:TPH-Se interfaces with enhanced π-orbital overlap, improved charge transfer, a narrowed charge-transfer band, and suppressed polaron-pair binding energy. Consequently, all of the Se-containing solar cells investigated in this manuscript exhibit higher short-circuit current densities and conversion efficiencies than those in Se-atom-free devices. Our results reveal an important molecular design strategy for high-performance rylene imide-based acceptors: efficiently improving the electronic interactions at the D–A interface to increase polaron-pair dissociation and suppress geminate recombination.

Molecular and structural characterization of a TEAD mutation at the origin of Sveinsson's chorioretinal atrophy.

Four TEAD transcription factors (TEAD1-4) mediate the signalling output of the Hippo pathway that controls organ size in humans. TEAD transcriptional activity is regulated via interactions with the YAP, TAZ and VGLL proteins. A mutation in the TEAD1 gene, Tyr421His, has been identified in patients suffering from Sveinsson's chorioretinal atrophy (SCA), an autosomal dominant eye disease. This mutation prevents the YAP/TAZ:TEAD1 interaction. In this study, we measure the affinity of YAP, TAZ and VGLL1 for the four human TEADs and find that they have a similar affinity for all TEADs. We quantitate the effect of the mutation found in SCA patients and show that it destabilizes the YAP/TAZ:TEAD interaction by about 3kcal·mol-1 . We determine the structure of YAP in complex with this mutant form of TEAD and show that the histidine residue adopts different conformations at the binding interface. The presence of this flexible residue induces the destabilization of several H-bonds and the loss of van der Waals contacts, which explains why the Tyr421HisTEAD1 mutation has such a large destabilizing effect on the formation of the YAP:TEAD complex. DATABASE: The crystallographic data have been deposited at the RSCB Protein Data Bank (PDB, www.pdb.org) with the access codes: 6HIL (wtYAP :Tyr421HisTEAD1 ), 6HIK (wtYAP :Tyr429HisTEAD4 ).