G-Quadruplex Recognition by DARPIns through Epitope/Paratope Analogy**

We investigated the mechanisms leading to the specific recognition of Guanine Guadruplex (G4) by DARPins peptides, which can lead to the design of G4 s specific sensors. To this end we carried out all-atom molecular dynamic simulations to unravel the interactions between specific nucleic acids, including human-telomeric (h-telo), Bcl-2, and c-Myc, with different peptides, forming a DARPin/G4 complex. By comparing the sequences of DARPin with that of a peptide known for its high affinity for c-Myc, we show that the recognition cannot be ascribed to sequence similarity but, instead, depends on the complementarity between the three-dimensional arrangement of the molecular fragments involved: the α-helix/loops domain of DARPin and the G4 backbone. Our results reveal that DARPins tertiary structure presents a charged hollow region in which G4 can be hosted, thus the more complementary the structural shapes, the more stable the interaction.     

Thiourea- and Amino-Substituted Benzoxadiazole Dyes with Large Stokes Shifts as Red-Emitting Probe Monomers for Imprinted Polymer Layers Targeting Carboxylate-Containing Antibiotics

Bifunctional fluorescent molecular oxoanion probes based on the benzoxadiazole (BD) chromophore are described which integrate a thiourea binding motif and a polymerizable 2-aminoethyl methacrylate unit in the 4,7-positions of the BD core. Concerted charge transfer in this electron donor-acceptor-donor architecture endows the dyes with strongly Stokes shifted (up to >250 nm) absorption and fluorescence. Binding of electron-rich carboxylate guests at the thiourea receptor leads to further analyte-induced red-shifts of the emission, shifting the fluorescence maximum of the complexes to ≥700 nm. Association constants for acetate are ranging from 1–5×10⁵ M⁻¹ in acetonitrile. Integration of one of the fluorescent probes through its polymerizable moiety into molecularly imprinted polymers (MIPs) grafted from the surface of submicron silica cores yielded fluorescent MIP-coated particle probes for the selective detection of antibiotics containing aliphatic carboxylate groups such as enoxacin (ENOX) at micromolar concentrations in highly polar solvents like acetonitrile.     

Reversible Photoinduced Conversion of Unprecedented Norbornadiene-Based Photoswitches with Redox-Active Naphthalene Diimide Functionalities

An unprecedented compound class of functional organic hybrids consisting of a photoswitchable norbornadiene building block and a redoxactive chromophore, namely naphthalene diimide, were designed and synthesized. Within these structures the capability of rylene chromophores to function as a redox active catalyst upon their photoexcitation was utilized to initiate the oxidative back-conversion of the in situ formed quadricyclane unit to its norbornadiene analogue. In this way successive photoexcitation at two different wavelengths enabled a controlled photoswitching between the two isomerical states of the hybrids. Beyond this prove of concept, the dependency of the reaction rate to the intramolecular distance of the two functional molecular building blocks as well as the concentration of the photoexcited sample was monitored. The experimental findings and interpretations were furthermore supported by quantum chemical investigations.     

The Mechanism of Biochemical NO-Sensing: Insights from Computational Chemistry

The binding of small gas molecules such as NO and CO plays a major role in the signaling routes of the human body. The sole NO-receptor in humans is soluble guanylyl cyclase (sGC) – a histidine-ligated heme protein, which, upon NO binding, activates a downstream signaling cascade. Impairment of NO-signaling is linked, among others, to cardiovascular and inflammatory diseases. In the present work, we use a combination of theoretical tools such as MD simulations, high-level quantum chemical calculations and hybrid QM/MM methods to address various aspects of NO binding and to elucidate the most likely reaction paths and the potential intermediates of the reaction. As a model system, the H-NOX protein from Shewanella oneidensis (So H-NOX) homologous to the NO-binding domain of sGC is used. The signaling route is predicted to involve NO binding to form a six-coordinate intermediate heme-NO complex, followed by relatively facile His decoordination yielding a five-coordinate adduct with NO on the distal side with possible isomerization to the proximal side through binding of a second NO and release of the first one. MD simulations show that the His sidechain can quite easily rotate outward into solvent, with this motion being accompanied in our simulations by shifts in helix positions that are consistent with this decoordination leading to significant conformational change in the protein.     

Competitive Photoisomerization and Energy Transfer Processes in Fluorescent Multichromophoric Systems

Multichromophoric systems showing both fluorescence and photoisomerization are fascinating, with complex interchromophoric interactions. The experimental and theoretical study of a series of compounds, bearing a variable number of 4-dicyanomethylene-2-tert-butyl-6-(p-(N-(2-azidoethyl)-N-methyl)aminostyryl)-4H-pyran (DCM) units are reported. The photophysical properties of multi-DCM derivatives, namely 2DCM and 3DCM , were compared to the single model azido-functionalized DCM , in the E and Z isomers. The (EE)- 2DCM and (EEE)- 3DCM were synthesized via the click reaction. Steady-state spectroscopy and photokinetics experiments under UV or visible irradiation indicated the presence of intramolecular energy transfer processes among the DCM units. Homo- and hetero-energy transfer processes between adjacent chromophores were confirmed by fluorescence anisotropy and decays. Molecular dynamics simulations for 2DCM were carried out and analyzed using a Markov state model, providing geometrical parameters (orientation and distance between chromophores) and energy transfer efficiency. This work contributes to a better understanding and rationalization of multiple energy transfer processes occuring within multichromophoric systems.     

铁基分子筛活性位点的制备控制及对NH3-SCR活性的影响

采用离子交换法,通过不同制备条件制备Fe-beta分子筛,并探讨不同制备条件对催化剂活性位点和NH3-SCR活性的影响。通过UV-Vis分析,将不同位置的吸收峰归属于不同的铁活性位点,300nm以下的高能谱区可以归属于孤立的Fe3+位点,300nm-400nm间归属于低聚的FexOy簇,而400nm以上为Fe2O3大颗粒聚合物。对比不同催化剂的SCR活性发现,孤立的Fe3+和低聚态的Fe3+是主要的活性位点,这两种物种的所占比例高低直接影响了催化剂的活性。而大尺度的Fe2O3为非活性位点,因尽量控制并降低其所占比例。另外低聚态的Fe3+所占比例越高,N2O的生成量越高,N2的选择性越差。因此,在制备过程中,除了控制大尺度的Fe2O3的含量,同时要尽量降低低聚态的Fe3+的含量,以增加N2的选择性。采用离子交换法制备Fe-beta催化剂,pH、交换温度、前驱体种类、硅铝比、煅烧条件等制备条件会对Fe-beta的活性位点造成影响,从而导致活性差异。根据实际应用需求,调控制备条件,可有效控制活性物种的分布,制备具有高效NH3-SCR活性的铁基分子筛催化剂。     

基础理论纵贯化学学科:吉林大学“统计力学与分子模拟”课程建设*

化学的基础理论的演进不断重塑着化学学科。传统的教学体系所依据的理论范式落后于现代化学理论的发展。吉林大学化学学院面向本科学生开设了“统计力学与分子模拟”课程。针对吉林大学本科学生的特点,精心安排了教学内容,通盘考虑知识体系的衔接,优化了教学方法。同时,淬炼了课程中的思政元素,从而在思想、道德、知识等3个方面进一步提升学生的综合素质。     

Histone deacetylase (HDAC) inhibitor curcumin upregulates mitochondrial uncoupling protein1 (UCP1) and mitochondrial function in brown adipocytes,in-silico study and screening natural drug library

Mitochondrial dysfunction has been associated with diverse pathological conditions globally. Specifically, in adipose tissues, mitochondrial dysfunction is the primary cause of obesity and obesity-related illnesses. An existing drugs such as atorvastatin and other lipid-lowering drugs demonstrated adverse effects and initiated other diseases. Thus, we need to explore new methods to prevent and treat obesity. In this study, we used the cell screening method to identify several natural compounds that increase adipocyte UCP1 gene expression. The identified drug Curcumin was evaluated in cell models and the In-silico model. We found curcumin is an active compound of turmeric belonging to Zingiberaceae (ginger family), which activates the Nrf2 mechanism. Curcumin potentially endorses the expression of UCP1 in the brown adipocyte in vitro cellular model. Curcumin plays an important role that modulating mitochondrial function and improving mitochondrial DNA quantification, ATP production, and cell viability. We have established an efficient in vitro cell experiment system to study the metabolic regulation of UCP1. The in-silico model revealed curcumin-UCP1 interaction. Curcumin, via enhancing mitochondrial activity, could be a helpful therapeutic molecule against metabolic disorders or obesity-related diseases. Curcumin will be the subject of more research in both human and murine models, which will provide novel therapeutic pathways for the treatment of metabolic illnesses by modulating the control of mitochondrial function.     

吸电子和亲水性Co-卟啉促进电催化氧还原反应的研究

研究影响电催化氧还原反应活性的因素对于合理设计高效的氧还原反应催化剂至关重要。调节催化剂电子结构通常被用于精确调控电催化氧还原反应活性。然而, 该反应发生在液/气/固界面, 很少有报道调控分子催化剂的亲疏水性来提高其催化活性。在此, 我们报道了两种钴卟啉NO₂-CoP（5,10,15,20-四（4-硝基苯基）钴卟啉）和5F-CoP（5,10,15,20-四（五氟苯基）钴卟啉）并研究了其电催化氧还原反应性能。通过同时调控meso-位取代基的电子结构和亲水性能, NO₂-CoP显示出比5F-CoP更高的电催化氧还原反应活性, 其半波电位向阳极方向移动近60 mV。NO₂-CoP比5F-CoP具有更好的亲水性。理论计算表明, NO₂-CoP比5F-CoP更容易有效地与O₂分子结合形成Co^III-O₂^·-。这项工作提供了一个简单而有效的策略, 通过使用吸电子和亲水取代基来提高钴卟啉的氧还原反应活性。该策略对于设计和开发其他用于电催化的分子催化剂体系也具有重要的启发意义。