甜菜碱与藻胆蛋白超分子复合体相互作用的分子机制

甘氨酸甜菜碱是具有重要生物学意义的生物小分子,它可以保护细胞、蛋白和酶的结构功能完整性,也会导致蛋白超分子结构松散、功能钝化,这两种相反作用的分子机制尚不清楚．本文以超分子藻胆蛋白和藻胆体为模型,证明甜菜碱导致超分子藻胆体结构松散、各组份能量失耦合,最敏感的作用位点是核．膜连接多肽,其次是杆一核连接多肽．C－藻蓝蛋白三聚体与单体对甜菜碱的相应完全不同,前者结构松散而后者相对聚集．甜菜碱屏蔽静电吸引力导致结构松散但强化基元蛋白之间的疏水作用力是两种相反现象的本质,甜菜碱最终导致C－藻蓝蛋白三聚体和单体相同的光谱特征是两种机制的“折中”．     

A semiempirical formulation for the study of molecular interactions

The coefficients of a 1/R expansion (containing long-range electrostatic interaction, medium-range electrostatic-induced dipole attraction, short-range dispersive attraction, and very short overlap interaction terms) have been determined, within a semiempirical approach, from the results of a priori calculations. The formulation has been applied to the study of the stable conformations of benzene complexes.     

Determination of Fluorescence Polarization and Absorption Anisotropy in Molecular Complexes Having Threefold Rotational Symmetry

Abstract— The current work concerns investigation of the polarization properties of complex molecular ensembles exhibiting threefold (C₃) rotational symmetry, particularly with regard to the interplay between their structure and dynamics of internal energy transfer. We assume that the molecules or chromophores in such complexes possess strongly overlapped spectra both for absorption and fluorescence. Such trimeric structures are widely found in biological preparations, as for example the trimer of C-phycocyanin (C-PC). Higher order aggregates, e.g. hex-amers and three-hexamer rods, are also investigated and compared with the trimer case. The theory addresses both steady-state and 8-pulse excitation and establishes some links between them. Monochromophoric, bichro-mophoric and trichromophoric molecular complexes are individually examined. For steady-state excitation, analytical formulas are reported for the degree of fluorescence polarization and absorption anisotropy. It is shown that the polarization is dependent on the chromophore inclination relative to the symmetry axis, the relative efficiencies of absorption and fluorescence by chromophores of different spectral types, and the rates of energy equilibration. To assess the validity of the theory, it has been applied to C-PC aggregates. Here it was found that different C-PC aggregates provide practically identical polarization response. For S-pulse excitation we give analytical formulas for determination of the fluorescence depolarization, and also the depolarization associated with absorption recovery, both for a monochromophoric trimer and some particular cases of bichromophoric trimer. More complicated systems are analyzed by computer modeling. Thus it transpires that the initial polarization anisotropy r(t = 0) takes the value 0.4 for all considered aggregates; the long-time limit r(t →∞) has about the same value as is associated with steady-state excitation. We also show that with steady-state excitation the degree of fluorescence polarization is practically equal for various C₃ aggregates of C-PC, and that the major factor determining the polarization is the chromophore orientation relative to the symmetry axis.     

Origin of attraction, magnitude, and directionality of interactions in benzene complexes with pyridinium cations

Geometries and interaction energies of benzene complexes with pyridine, pyridinium, N-methylpyridinium were studied by ab initio molecular orbital calculations. Estimated CCSD(T) interaction energies of the complexes at the basis set limit were -3.04, -14.77, and -9.36 kcal/mol, respectively. The interactions in the pyridinium and N-methylpyridinium complexes should be categorized into a cation/pi interaction, because the electrostatic and induction interactions greatly contribute to the attraction. On the other hand, the interaction in the pyridine complex is a pi/pi interaction. The dispersion interaction is mainly responsible for the attraction in the benzene-pyridine complex. Short-range interactions including charge-transfer interactions are not important for the attraction in the three complexes. The most stable pyridinium complex has a T-shaped structure, in which the N-H bond points toward the benzene, while the N-methylpyridinium complex prefers a slipped-parallel structure. The benzene-pyridine complex has two nearly isoenergetic (Slipped-parallel and T-shaped) structures.     

Light‐Triggered Capture and Release of DNA and Proteins by Host–Guest Binding and Electrostatic Interaction

The development of an effective and general delivery method that can be applied to a large variety of structurally diverse biomolecules remains a bottleneck in modern drug therapy. Herein, we present a supramolecular system for the dynamic trapping and light‐stimulated release of both DNA and proteins. Self‐assembled ternary complexes act as nanoscale carriers, comprising vesicles of amphiphilic cyclodextrin, the target biomolecules and linker molecules with an azobenzene unit and a charged functionality. The non‐covalent linker binds to the cyclodextrin by host–guest complexation with the azobenzene. Proteins or DNA are then bound to the functionalized vesicles through multivalent electrostatic attraction. The photoresponse of the host–guest complex allows a light‐induced switch from the multivalent state that can bind the biomolecules to the low‐affinity state of the free linker, thereby providing external control over the cargo release. The major advantage of this delivery approach is the wide variety of targets that can be addressed by multivalent electrostatic interaction, which we demonstrate on four types of DNA and six different proteins.     

茜素与AcO~-阴离子的超分子作用及紫外-可见吸收光谱的理论研究

采用密度泛函方法(DFT/B3LYP),在6-31+G水平上分别优化茜素以及AcO-阴离子复合物的几何构型.从几何结构参数、电荷布居和前线轨道能量等方面探讨了复合物形成过程中主体分子的构象变化,以及主客体间的超分子作用.用含时密度泛函方法(TD-B3LYP/6-31+G)分别计算了主体分子以及与阴离子形成复合物的紫外-可见吸收光谱.根据所得复合物的特征吸收峰波长红移情况,从理论上较好地解释了主体分子通过氢键与AcO-形成稳定阴离子复合物的实验事实.结果表明,乙腈溶剂中茜素对AcO-具有较强的超分子作用和选择性识别能力.     

Analysis of the intermolecular interaction between CH(3)OCH(3), CF(3)OCH(3), CF(3)OCF(3), and CH(4): high level ab initio calculations

The intermolecular interaction energies of the CH₃OCH₃? CH₄, CF₃OCH₃? CH₄, and CF₃OCF₃? CH₄ systems were calculated by ab initio molecular orbital method with the electron correlation correction at the second order Møller–Plesset perturbation (MP2) method. The interaction energies of 10 orientations of complexes were calculated for each system. The largest interaction energies calculated for the three systems are ?1.06, ?0.70, and ?0.80 kcal/mol, respectively. The inclusion of electron correlation increases the attraction significantly. It gains the attraction ?1.47, ?1.19, and ?1.27 kcal/mol, respectively. The dispersion interaction is found to be the major source of the attraction in these systems. In the CH₃OCH₃? CH₄ system, the electrostatic interaction (?0.34 kcal/mol) increases the attraction substantially, while the electrostatic energies in the other systems are not large. Fluorine substitution of the ether decreases the electrostatic interaction, and therefore, decreases the attraction. In addition the orientation dependence of the interaction energy is decreased by the substitution. © 2002 Wiley Periodicals, Inc. J Comput Chem 23: 1472–1479, 2002     

Theoretical investigation of the hydrogen bond interactions of methanol and dimethylamine with hydrazone and its derivatives

The interactions between hydrogen bond donors (dimethylamine (DMA) and methanol (MeOH)) and acceptors (formaldehyde dimethylhydrazone, acetaldehyde N,N-dimethylhydrazone and N-nitrosodimethylamine) were theoretically investigated by DFT. The hydrogen bonding interactions were found on several bonding sites of the acceptors. The important properties of structure, binding energy, enthalpy of formation, Gibbs free energy of formation and equilibrium constant were investigated. Compared to the monomer, the DMA complexes show a small red shift of the NH-stretching vibrational transition but a significantly intensity enhancement. On the other hand, the MeOH complexes have a large red shift but a relatively small intensity enhancement of the OH-stretching transition. Atoms-in-molecules analysis revealed that several types of hydrogen bond interaction were present in the complexes. Since natural bond orbital analysis overestimated the effect of charge transfer, the more reliable localized molecular orbital energy decomposition analysis was performed and it shows that the major contribution to the total interaction energy is the electrostatic interaction. All these parameters suggest that the hydrogen bond donor strength of MeOH is substantially greater than DMA.

     

Study of the effect of nanosized carbon black on flammability and mechanical properties of poly(butylene succinate)

Biodegradable poly(butylene succinate)/nanosized carbon black (PBS/CB) nanocomposites were prepared by melt compounding to investigate the effect of CB on flammability and mechanical properties of PBS. In the nanocomposites, CB displayed some positive effect on improving the flame retardancy of PBS, mainly on the decrease of peak of heat release rate, the increase of limited oxygen index value, and the inhibition of melt dripping. It was contributed to the formation of a good carbon layer during combustion and of a network structure in the PBS matrix. Moreover, a good balance on mechanical performances of PBS/CB nanocomposites was achieved with enhanced stiffness and high toughness, which was ascribed to the compatibilization of PBS‐g‐MA, leading to a good dispersion of nanofillers and strong matrix‐nanoparticle interaction. Copyright © 2014 John Wiley & Sons, Ltd.     

Synthesis,Characterization, and Catalysis of Water-Soluble Trimeric and Monomeric Palladium Complexes of 8-Aminoquinolines

New water soluble neutral and cationic palladium complexes were synthesized using 8-aminoquinoline (8-AQ) and 2-methyl 8-aminoquinoline (2-Me 8-AQ) ligands and their catalytic properties were evaluated. The neutral trimeric complexes having a Pd₃N₃ core were found to form when Pd(OAc)₂ was reacted with 8-AQ or 2-Me 8-AQ irrespective of the stoichiometry between the 2 reagents. Controlled addition of triflic acid to the neutral trimeric complex resulted in the formation of a trimeric cationic palladium complex as well as a monomeric cationic complex. A cationic palladium complex having two units of 2-Me-8AQ ligand was also synthesized from the cationic monomeric complex. Crystal structures of the new palladium complexes are reported in this study. The water-soluble neutral palladium complex showed catalytic activity for the oxidation of benzyl alcohols to benzaldehydes, while the cationic palladium complexes were found to be efficient catalysts for the oxidation of styrenes to methyl ketones.     

BSA‐Polysaccharide Interactions at Negatively Charged Electrode Surface. Effects of Current Density.

Constant current chronopotentiometric stripping (CPS) peak H due to catalytic hydrogen evolution reaction on Hg‐containing electrodes appeared useful in the analysis of protein complexes with single‐stranded and double‐stranded DNA as well as with peptides. In dependence on stripping current (I_str), structural transition of the protein alone or in complexes can be followed as a result of the protein exposure to electric field effects. For the first time we show here that the CPS analysis can be used for the study of the interaction of BSA with a polysaccharide namely sodium alginate (SA). BSA‐SA complex formation was accompanied by the shift of the structural transition of BSA to lower ‐I_str intensities. Another polysaccharide dextran did not alter I_str‐dependent structural transition of BSA. BSA‐SA complex can be disturbed by an electric field effect or high ionic strength confirming the electrostatic nature of BSA‐SA interaction.     

Structural determinants for the efficient and specific interaction of thioredoxin with 2-oxoacid dehydrogenase complexes

Specificity and efficiency of thiored oxin action upon the 2-oxoacid dehydrogenase complexes are studied by using a number of thiored oxins and complexes. Bacterial and mammalian pyruvate and 2-oxoglutarate dehydrogenase systems display similar row of preference to thioredoxins that may result from thioredoxin binding to the homologous or common dihydrolipoamide dehydrogenase components of the complexes. The most sensitive tothioredoxin is the complex whose component exhibits the highest sequence similarity to eukaryotic thioredoxin reductase. Hence, thioredoxin binding to the complexes may be related to that in the thioredoxin reductase, a dihydrolipoamide dehydrogenase homolog. The highest potency of mitochondrial thioredoxin to affect the mitochondiral complexes is revealed. A 96–100% conservation of the mitochondrial thioredoxin structure is shown within the four known sequences and the N-terminus of the pigheart protein determined. Eleven thioredoxins tested biochemically are analyzed by multiple sequence alignment and homology modeling. Their effects correlate with the residues at the contact between the α 3/3₁₀ and α 1 helices, the length of the α 1 helix and charges in the α2–β3 and β4–β5 linkers. Polarization of the thioredoxin molecule and its active site surroundings are characterized. Thioredoxins with a highly polarized surface around the essential disulfide bridge (mitochondiral, pea f, and Arabidopsis thaliana h3) show low cross-reactivity as compared to the species with a decreased polarization of this area (e.g., from Escherichia coli). The strongest polarization of the whole molecule results in the highest magnitude of the electrostatic dipole vector of mitochondrial thioredoxin. Thiored oxins with the dipole orientation similar to that of the latter have the affinities for the 2-oxoacid dehydrogenase complexes, proportional to the dipole magnitudes. Thioredoxin with an opposite dipole orientation shows no effect. Activating and inhibitory thioredoxin disulfides are distinguished by the charges of the residues 13/14 (α1 helix(, 51 (α2–β3 linker), and 83/85 (β4–β5 linker), changing the dipole direction. The results show that the thioredoxin-target interplay may be controlled by the long-range interactions between the electrostatic dipole vectors of the proteins and the degree of their interface polarization.     

十二烷基磺酸钠对大豆过氧化物酶活性和构象的影响

在不同的pH值体系中, 利用酶活测量、圆二色谱、荧光谱和电子吸收谱研究了十二烷基磺酸钠(SDS)对大豆过氧化物酶(SBP)活性与构象的影响情况. 在pH 2.6和4.2 的体系中, 少量的SDS分子可通过静电作用与SBP结合, 进而与SBP分子中的His169残基结合, 降低其与铁卟啉的配位能力, 使其Soret吸收带蓝移, 二级结构发生轻微的变动, 活性永久丧失. 在pH 5.2体系中, SDS和SBP分子都带负电, 由于静电排斥作用, SDS无法进入SBP的分子内部, 失去与SBP分子中His169残基结合的能力, 对SBP分子的二级结构没有影响, 仅对SBP分子的三级结构有所影响. 当SDS的浓度大于临界胶束浓度时, 由于胶束与SBP的静电排斥作用增强, 限制了铁卟啉中乙烯基的运动, 乙烯基与卟啉环的共轭程度增大, Soret 吸收带红移. 由于SBP活性可完全恢复, 此变化是可逆的.     

Supramolecular fullerene-porphyrin chemistry. Fullerene complexation by metalated "jaws porphyrin" hosts

Porphyrins and fullerenes are spontaneously attracted to each other. This new supramolecular recognition element is explored in discrete, soluble, coordinatively linked porphyrin and metalloporphyrin dimers. Jawlike clefts in these bis-porphyrins are effective hosts for fullerene guests. X-ray structures of the Cu complex with C60 and free-base complexes with C70 and a pyrrolidine-derivatized C60 have been obtained. The electron-rich 6:6 ring-juncture bonds of C60 show unusually close approach to the porphyrin or metalloporphyrin plane. Binding constants in toluene solution increase in the order Fe(II) < Pd(II) < Zn(II) < Mn(II) < Co(II) < Cu(II) < 2H and span the range 490-5200 M-1. Unexpectedly, the free-base porphyrin binds C60 more strongly than the metalated porphyrins. This is ascribed to electrostatic forces, enhancing the largely van der Waals forces of the pi-pi interaction. The ordering with metals is ascribed to a subtle interplay of solvation and weak interaction forces. Conflicting opinions on the relative importance of van der Waals forces, charge transfer, electrostatic attraction, and coordinate bonding are addressed. The supramolecular design principles arising from these studies have potential applications in the preparation of photophysical devices, molecular magnets, molecular conductors, and porous metal-organic frameworks.     

Interaction of interpolyelectrolyte complexes formed by a linear polyelectrolyte and dendrimers or spheres

The interaction between polyelectrolyte complexes formed by a linear polyelectrolyte and a dendrimer or a spherical particle with the opposite charge has been investigated via computer simulation. The influence of the compositions of the complexes on the effective force of the interaction between them has been studied. It has been shown that the effective attraction between the complexes appears at short distances in the vicinity of the isoelectric point. This attraction is correlative in nature and stronger for the complexes of the linear polyelectrolyte with spherical particles than for the complexes with dendrimers.     

The acid catalyzed conversion of 1,3,5-trimethyl-2,4,6-tris(2-pyridyl)hexahydro-s-triazine into the asymmetric monomer, N-methylpyridine-2-carboxaldimine

This paper discusses the nature of the products formed from the reaction of 2-pyridinecarboxaldehyde and methylamine. The synthesized products manifest themselves in two distinct forms, one an oil and the other crystalline, which have identical chemical properties but differ dramatically in their spectroscopic parameters. A novel trimeric structure, the hexahydro-s-triazine, is suggested for the crystalline form, while the oil appears to be the monomeric N-methyl pyridine-2-carboxaldimine. IR, UV–vis, Raman and NMR spectroscopies are used to validate the proposed structures. The conversion of the trimeric crystalline form to the monomeric oil form, is acid-catalyzed and occurs rapidly.     

Emulsion stabilisation using polysaccharide–protein complexes

There is a great deal of interest in the Food Industry in the use of polysaccharides and proteins to stabilise oil-in-water emulsions and there is a particular interest nowadays in the use of polysaccharide–protein complexes. There are three classes of complexes namely; (a) naturally-occurring complexes in which protein residues are covalently attached to the polysaccharide chains as is the case, for example, with gum Arabic; (b) Maillard conjugates, which are formed by interaction of the reducing end of a polysaccharide with an amine group on a protein forming a covalent bond; and (c) electrostatic complexes formed between a polysaccharide and a protein with opposite net charge. This review sets out our current understanding of the nature of these different polysaccharide–protein complexes and their ability to stabilise oil-in-water emulsions.     

Coronaviruses Use ACE2 Monomers as Entry-Receptors

The angiotensin-converting enzyme 2 (ACE2) has been identified as entry receptor on cells enabling binding and infection with the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) via trimeric spike (S) proteins protruding from the viral surface. It has been suggested that trimeric S proteins preferably bind to plasma membrane areas with high concentrations of possibly multimeric ACE2 receptors to achieve a higher binding and infection efficiency. Here we used direct stochastic optical reconstruction microscopy (dSTORM) in combination with different labeling approaches to visualize the distribution and quantify the expression of ACE2 on different cells. Our results reveal that endogenous ACE2 receptors are present as monomers in the plasma membrane with densities of only 1–2 receptors μm⁻². In addition, binding of trimeric S proteins does not induce the formation of ACE2 oligomers in the plasma membrane. Supported by infection studies using vesicular stomatitis virus (VSV) particles bearing S proteins our data demonstrate that a single S protein interaction per virus particle with a monomeric ACE2 receptor is sufficient for infection, which provides SARS-CoV-2 a high infectivity.     

Monomeric and Trimeric Manganese(III) Complexes of 2-Hydroxy-5,10,15,20-tetraphenylporphyrin. Synthesis and Characterization

The hydrolysis of the monomeric five-coordinate (2-BzO-TPP)Mn(III)Cl complex has been investigated.(1) Evidence for the formation of the cyclic trimeric complex [(2-O-TPP)Mn(III)](3) is presented. The (1)H NMR spectroscopic evidence indicates that the trimeric manganese(III) complex has a head-to-tail cyclic trimeric structure with the pyrrolic alkoxide groups forming bridges from one macrocycle to the manganese(III) ion in the adjacent macrocycle PMn-O-PMn-O-PMn-O. The three manganese(III) porphyrin subunits are not equivalent. The characteristic upfield shift of the 3-H pyrrole resonance (-111.5 ppm at 291 K) was determined and considered as the diagnostic feature for the high-spin d(4) manganese(III)-pyrrole alkoxide coordination. The strong upfield shift of the 3-H resonance has been accounted for by the donation of the electron density from the filled orbital of the 2-O atom on the half-occupied d(z)()()2 orbital of the external manganese(III) ion. The other pyrrole resonances produce the complex multiplet at the typical -5 to -40 ppm region. The (1)H NMR spectra of the series of monomeric 2-substituted manganese(III) 5,10,15,20-tetraphenylporphyrin complexes (2-X-TPP)Mn(III)Cl have been obtained and analyzed. The pattern of the assigned seven pyrrole resonances reflects the asymmetry imposed by 2-substitution and has been used as a (1)H NMR spectroscopic probe to map the spin density distribution. The electronic effect is strongly localized at the beta-substituted pyrrole. The upfield shift of the 3-H resonance increases in the order (2-NO(2)-TPP)Mn(III)Cl < (2-BzO-TPP)Mn(III)Cl < (2-OCH(3)-TPP)Mn(III)Cl < (2-OH-TPP)Mn(III)Cl < (2-NH(2)-TPP)Mn(III)Cl < [(2-O-TPP)Mn(III)(OH)](-) following the increasing electron-donating properties of the beta-substituent.