Computational Design of Novel Allosteric Inhibitors for Plasmodium falciparum DegP

The serine protease, DegP exhibits proteolytic and chaperone activities, essential for cellular protein quality control and normal cell development in eukaryotes. The P. falciparum DegP is essential for the parasite survival and required to combat the oscillating thermal stress conditions during the infection, protein quality checks and protein homeostasis in the extra-cytoplasmic compartments, thereby establishing it as a potential target for drug development against malaria. Previous studies have shown that diisopropyl fluorophosphate (DFP) and the peptide SPMFKGV inhibit E. coli DegP protease activity. To identify novel potential inhibitors specific to PfDegP allosteric and the catalytic binding sites, we performed a high throughput in silico screening using Malaria Box, Pathogen Box, Maybridge library, ChEMBL library and the library of FDA approved compounds. The screening helped identify five best binders that showed high affinity to PfDegP allosteric (T0873, T2823, T2801, {"type":"entrez-protein","attrs":{"text":"RJC02337","term_id":"1480409465","term_text":"RJC02337"}}RJC02337, CD00811) and the catalytic binding site (T0078L, T1524, T2328, BTB11534 and 552691). Further, molecular dynamics simulation analysis revealed {"type":"entrez-protein","attrs":{"text":"RJC02337","term_id":"1480409465","term_text":"RJC02337"}}RJC02337, BTB11534 as the best hits forming a stable complex. WaterMap and electrostatic complementarity were used to evaluate the novel bio-isosteric chemotypes of {"type":"entrez-protein","attrs":{"text":"RJC02337","term_id":"1480409465","term_text":"RJC02337"}}RJC02337, that led to the identification of 231 chemotypes that exhibited better binding affinity. Further analysis of the top 5 chemotypes, based on better binding affinity, revealed that the addition of electron donors like nitrogen and sulphur to the side chains of butanoate group are more favoured than the backbone of butanoate group. In a nutshell, the present study helps identify novel, potent and Plasmodium specific inhibitors, using high throughput in silico screening and bio-isosteric replacement, which may be experimentally validated.     

Unveiling the High-valence Oxygen Degradation Across the Delithiated Cathode Surface

Charge compensation on anionic redox reaction (ARR) has been promising to realize extra capacity beyond transition metal redox in battery cathodes. The practical development of ARR capacity has been hindered by high-valence oxygen instability, particularly at cathode surfaces. However, the direct probe of surface oxygen behavior has been challenging. Here, the electronic states of surface oxygen are investigated by combining mapping of resonant Auger electronic spectroscopy (mRAS) and ambient pressure X-ray photoelectron spectroscopy (APXPS) on a model LiCoO₂ cathode. The mRAS verified that no high-valence oxygen can sustain at cathode surfaces, while APXPS proves that cathode electrolyte interphase (CEI) layer evolves and oxidizes upon oxygen gas contact. This work provides valuable insights into the high-valence oxygen degradation mode across the interface. Oxygen stabilization from surface architecture is proven a prerequisite to the practical development of ARR active cathodes.     

1,3-Imidazole-Based Mesoionic Carbenes and Anionic Dicarbenes: Pushing the Limit of Classical N-Heterocyclic Carbenes

Classical N-heterocyclic carbenes (NHCs) featuring the carbene center at the C2-position of 1,3-imidazole framework (i.e. C2-carbenes) are well acknowledged as very versatile neutral ligands in molecular as well as in materials sciences. The efficiency and success of NHCs in diverse areas is essentially attributed to their persuasive stereoelectronics, in particular the potent σ-donor property. The NHCs with the carbene center at the unusual C4 (or C5) position, the so-called abnormal NHCs (aNHCs) or mesoionic carbenes (iMICs), are however superior σ-donors than C2-carbenes. Hence, iMICs have substantial potential in sustainable synthesis and catalysis. The main obstacle in this direction is rather demanding synthetic accessibility of iMICs. The aim of this review article is to highlight recent advances, particularly by the author's research group, in accessing stable iMICs, quantifying their properties, and exploring their applications in synthesis and catalysis. In addition, the synthetic viability and use of vicinal C4,C5-anionic dicarbenes (ADCs), also based on an 1,3-imidazole framework, are presented. As will be apparent on following pages, iMICs and ADCs hold potentials in pushing the limit of classical NHCs by enabling access to conceptually new main-group heterocycles, radicals, molecular catalysts, ligands sets, and more.     

静电喷雾结合热压处理制备荷负电PVA-SA/PAN纳米纤维基复合滤膜及其纳滤性能研究

以静电纺丝聚丙烯腈(PAN)纳米纤维作为多孔支撑层,以亲水材料聚乙烯醇(PVA)和海藻酸钠(SA)为亲水表层材料,通过静电喷雾技术将亲水表层材料沉积在纳米纤维多孔基膜表面,然后将表层PVA-SA纳米串珠层通过水蒸气加湿辅助热压成膜处理在PAN基膜上软化压延形成完整的致密薄膜,最后经过戊二醛交联制备PVA-SA/PAN纳米纤维基复合滤膜.通过对加湿时间、热压温度、热压时间以及PVA-SA静电喷雾时间等成膜工艺条件和交联条件进行优化制备出结构完整的PVA-SA/PAN纳米纤维基复合滤膜.所制备的复合滤膜荷负电,它对阴离子染料具有较好的过滤效果:在0.6 MPa的操作压力下对100 mg/kg的固绿染料的渗透通量为57.1 L/(m~2h),截留率为96.8%.     

Design and synthesis of a Cu(II)-complex-based carbazole-hemicyanine hybrid for fluorescent sensing of H2S in SDS micellar solution

A novel fluorescent chemosensor HACBA with carbazole-hemicyanine fluorophore as signal reporter and N,N,N'-tri(2-pyridylmethyl)ethylenediamine (TPEA) as binding sites was designed and synthesized. Its assemblies with anionic surfactant sodium dodecyl sulfate (SDS) show improved fluorescence emission stability and enhanced fluorescence intensity. HACBA/SDS system can selectively recognize Cu²⁺, which led to a dramatic fluorescence quenching. The in situ resultant HACBA-Cu(II)/SDS ensemble functioned as a highly selective and sensitive sensor for H₂S with a turn-on fluorescent response. Our results show that the “on-off-on” molecular switch occured through the reversible formation-dissociation reaction between HACBA-Cu(II) complex and HACBA/CuS in the SDS micellar solution, and at least 3 cycles of on-off-on switches were observed.     

Extraction Separation of BSA in Aqueous Two-Phase Systems of Anionic and Cationic Surfactant Mixtures

Aqueous two-phase systems (ATPS) are formed in mixtures of sodium dodecylsulfate (SDS), cetyltrimethyl ammonium bromide (CTAB), and sodium bromide (NaBr). Two different kinds of ATPS appear when CTAB and SDS surfactants are in excess, respectively. Such ATPS may provide a new, useful partitioning system for separation of bovine serum albumin (BSA). The partitioning of BSA was studied in these systems. The results show that the partitioning is affected by the electrical property, the hydrophobicity and the structure of liquid crystal (LC), which exists in the top phase of the ATPS. BSA is extracted into the top phase with higher distribution coefficient when LC and BSA are oppositely charged. The hydrophobicity of LC, which can be improved by increasing the length of alkyl group, enhances the distribution coefficient. The hydrophobicity of lamellar LC and hexagonal LC is stronger than that of cubic LC, which causes extractive capability of the former is higher than the latter.     

Limiting the Number of Potential Binding Modes by Introducing Symmetry into Ligands: Structure‐Based Design of Inhibitors for Trypsin‐Like Serine Proteases

In the absence of X‐ray data, the exploration of compound binding modes continues to be a challenging task. For structure‐based design, specific features of active sites in different targets play a major role in rationalizing ligand binding characteristics. For example, dibasic compounds have been reported as potent inhibitors of various trypsin‐like serine proteases, the active sites of which contain several binding pockets that can be targeted by cationic moieties. This results in several possible orientations within the active site, complicating the binding mode prediction of such compounds by docking tools. Therefore, we introduced symmetry in bi‐ and tribasic compounds to reduce conformational space in docking calculations and to simplify binding mode selection by limiting the number of possible pocket occupations. Asymmetric bisbenzamidines were used as starting points for a multistage and structure‐guided optimization. A series of 24 final compounds with either two or three benzamidine substructures was ultimately synthesized and evaluated as inhibitors of five serine proteases, leading to potent symmetric inhibitors for the pharmaceutical drug targets matriptase, matriptase‐2, thrombin and factor Xa. This study underlines the relevance of ligand symmetry for chemical biology.     

Phosphono Bisbenzguanidines as Irreversible Dipeptidomimetic Inhibitors and Activity‐Based Probes of Matriptase‐2

Matriptase‐2, a type II transmembrane serine protease, plays a key role in human iron homeostasis. Inhibition of matriptase‐2 is considered as an attractive strategy for the treatment of iron‐overload diseases, such as hemochromatosis and β‐thalassemia. In the present study, synthetic routes to nine dipeptidomimetic inactivators were developed. Five active compounds ( 41 – 45 ) were identified and characterized kinetically as irreversible inhibitors of matriptase‐2. In addition to a phosphonate warhead, these dipeptides possess two benzguanidine moieties as arginine mimetics to provide affinity for matriptase‐2 by binding to the S1 and S3/S4 subpockets, respectively. This binding mode was strongly supported by covalent docking analysis. Compounds 41 – 45 were obtained as mixtures of two diastereomers and were therefore separated into the single epimers. Compound 45 A , with S configuration at the N‐terminal amino acid and R configuration at the phosphonate carbon atom, was the most potent matriptase‐2 inactivator with a rate constant of inactivation of 2790 m ^?1 s^?1 and abolished the activity of membrane‐bound matriptase‐2 on the surface of intact cells. Based on the chemotyp of phosphono bisbenzguanidines, the design and synthesis of a fluorescent probe ( 51 A ) by insertion of a coumarin label is described. The in‐gel fluorescence detection of matriptase‐2 was demonstrated by applying 51 A as the first activity‐based probe for this enzyme.