腺苷酸激酶催化循环后期Mg~(2+)转移的分子动力学模拟（英文）

腺苷酸激酶是一个包含三个结构域(LID结构域、NMP结构域和CORE结构域)的蛋白质分子,其主要作用是催化化学反应Mg~(2+)+ATP+AMP(?)2ADP+Mg~(2+)进而将细胞内ATP分子的浓度维持在合适的范围内。在腺苷酸激酶催化上述化学反应的过程中,需要有Mg~(2+)的参与。最近的实验发现Mg~(2+)不仅参与上述反应的化学步骤,而且对化学反应发生后底物的释放过程至关重要。己有晶体结构数据显示,在催化循环过程的化学反应步骤完成后,一个Mg~(2+)可同时和分别位于LID结构域及NMP结构域的两个ADP分子配位。然而,在底物的释放与分离过程中,Mg~(2+)可能只与其中一个ADP分子结合。由于Mg~(2+)与ADP分子的结合情况会在很大程度上影响作为催化循环限速步骤的底物释放过程,因此人们有必要研究清楚在底物释放前Mg~(2+)与催化产物ADP分子的配位情况,即Mg~(2+)更倾向于与LID结构域的ADP分子结合还是与NMP结构域的ADP分子结合。本文中,我们对催化反应后底物释放前的酶-底物复合物(包含酶、两个ADP分子以及Mg~(2+))做了分子动力学模拟研究。我们基于metadynamics方法得到了Mg~(2+)在两个ADP分子间转移的自由能面,发现在底物分离与释放过程中,Mg~(2+)更倾向于与LID结构域的ADP分子结合。只有当LID结构域的ADP分子被质子化,同时NMP结构域的ADP分子处于去质子化状态时,Mg~(2+)才会倾向于与NMP结构域的ADP分子结合。另外,我们也刻画了Mg~(2+)转移过程中配体交换与脱水过程。本工作的研究结果有助于理解腺苷酸激酶催化循环后期的分子过程。     

金属阳离子对聚丙烯酰胺溶液黏度的影响及其降黏机理研究

聚丙烯酰胺(HPAM)是油田常用的驱油聚合物,用油田污水配制HPAM溶液易导致其黏度明显降低,影响驱油效果。依据埕东油田污水实测的各种金属阳离子含量来配制HPAM溶液,测得各金属阳离子对其黏度影响由大到小的顺序为:Na⁺>Fe²⁺>Ca²⁺>K⁺>Mg²⁺;通过红外光谱和扫描电镜分析金属阳离子导致HPAM溶液降黏的机理,Na⁺、K⁺、Ca²⁺、Mg²⁺主要是通过与HPAM链上的羧酸根阴离子静电引力相互作用,降低HPAM分子表面原有的电荷密度,造成分子链卷曲,同时减弱了极性基团的溶剂化能力,释放大量的"束缚水",从而使黏度显著降低;Fe²⁺离子主要是与水中溶解氧共同作用,引发自由基反应,导致HPAM骨架水解断裂,致使黏度显著降低。     

助剂对于Cu/ZnO催化剂结构特征及催化草酸二甲酯加氢合成乙二醇反应性能的影响

采用共沉淀法合成了掺杂不同助剂的Cu-M/ZnO (Cu:ZnO 物质的量比=5∶4,M=Zr⁴⁺、Al³⁺、Mg²⁺，助剂含量为4.0%)用于催化草酸二甲酯(Dimethyl oxalate, DMO)选择加氢反应催化剂。结果表明，微量掺杂Al³⁺、Mg²⁺助剂嵌入于ZnO 晶相，Zr⁴⁺助剂嵌入Cu晶相均能显著促进Cu/ZnO 催化剂中铜分散；其中，Mg²⁺助剂能够有效增强Cu、ZnO 物相间相互作用，Zr⁴⁺助剂能够有效增强Cu、ZrO₂物相间相互作用。催化DMO加氢选择加氢反应，Cu/ZnO 催化剂乙二醇(Ethylene glycol,EG)收率仅为75.0%,Cu-Al/ZnO 、Cu-Zr/ZnO 和Cu-Mg/ZnO 催化剂的EG收率分别为90.0%、85.0%、95.0%。相比Cu/ZnO 和Cu-Al/ZnO 催化剂催化DMO选择加氢反应易于失活，Cu-Zr/ZnO 和C...     

拉曼光谱法研究Na+, Mg2+//SO42-, Cl-, H2O四元体系中SO42-离子缔合结构特征及其变化规律

复杂水盐体系存在稳态和介稳固液相平衡以及复杂的成盐规律。为了解固液平衡状态下液相的结构特征,本文采用拉曼光谱技术并结合高斯-洛伦兹去卷积分峰拟合程序对Na⁺, Mg²⁺//SO₄^2-, Cl^-, H₂O四元体系及其二元和三元子体系中ν₁-SO₄^2-的离子缔合结构特征进行了分析。研究结果表明:SO₄^2-在Na₂SO₄-H₂O体系存在自由态SO₄^2-和SO₄^2-离子簇两种结构,在MgSO₄-H₂O, MgSO₄-MgCl₂-H₂O及Na⁺, Mg²⁺//SO₄^2-, Cl^-, H₂O等含镁体系中,还有Mg²⁺-H₂O-SO₄^2-和Mg²⁺-OSO₃^2-两种缔合结构。在二元和三元体系中ν₁-SO₄^2-的离子缔合结构以自由态SO₄^2-为主,随着SO₄^2-离子总浓度的变化,上述四种结构所占比例会发生规律性变化。Na⁺, Mg²⁺//SO₄^2-, Cl^-, H₂O四元体系在NaCl减少及等温蒸发过程中,自由态SO₄^2-结构比例逐步降低, Mg²⁺和SO₄^2-相结合形成Mg²⁺-H₂O-SO₄^2-或Mg²⁺-OSO₃^2-结构的机会增多,在复盐区还会形成SO₄^2-离子簇结构。由此判断溶液结构的适应性变化是导致介稳现象的重要原因。进一步的相关分析表明:SO₄^2-的浓度和耶涅克指数J与ν₁-SO₄^2-峰的峰强度和峰面积存在正相关关系, Mg²⁺浓度是影响ν₁-SO₄^2-峰中四种缔合结构的比例发生变化的主要因素。     

血清镁离子浓度与直肠癌患者谷氨酰转肽酶的关系

直肠癌患者血清镁离子(Mg²⁺)浓度对γ-谷氨酰转肽酶(γ-GT)的影响尚不明确，收集分析临床数据，Mg²⁺浓度不呈正态分布(D=0.737,P<0.05),按照中位数分组，比较不同组间临床病理特征的差异，用局部加权散点平滑(LOWESS)、分段线性回归方法，拟合血清Mg²⁺浓度与γ-GT的关系。结果发现，与Mg²⁺浓度小于0.92 mmol/L组的直肠癌患者比较，Mg²⁺浓度≥0.92 mmol/L组的γ-GT和血清总胆固醇较高(P均<0.05)。LOWESS的结果表明，原始数据中血清Mg²⁺浓度的两个变化点分别为0.92 mmol/L和0.99 mmol/L,自然对数转换的数据中血清Mg²⁺浓度的另外两个变化点分别为-0.167和-0.01。利用原始数据建立的两段线性回归模型表明，血清Mg²⁺浓度的变化点为0.98 mmol/L,Mg²⁺浓度<0.98 mmol/L对γ...     

C1～C3正构醛、醇在质子转移反应飞行时间质谱中的产物离子特征分析

为分析C₁～C₃正构醛、 醇化合物在质子转移反应飞行时间质谱(PTR-TOF MS)中的产物离子特征, 考察了不同E/N值(E: 电场强度, N: 气体分子数密度)下C₁～C₃正构醛、 醇的产物离子种类和强度的变化. 结果表明, 低分子量正构醇类(甲醇、 乙醇和丙醇)倾向于形成质子化聚合物[nMH]⁺及其失水离子[nMH-H₂O]⁺, 且随着E/N值升高, 醇类会产生较多裂解碎片和多聚体离子. 低分子量正构醛(甲醛、 乙醛和丙醛)主要产生质子化产物[MH]⁺和一水合质子化产物[M·H₃O]⁺, 高E/N值(>125 Td)会抑制甲醛质子化, 也会抑制其加合产物的生成. 乙醛倾向于形成水加合物, 且随着E/N值增高, 质子化乙醛与一水合质子化乙醛的变化趋势相反. 另外, 丙醛在较高的E/N值下会产生一系列聚合物, 如[MH·C₂H₅]⁺和[2MH]⁺. 通过分析C₁～C₃正构醛、 醇的质子转移反应特征及产物离子形成过程, 获得了C₁～C₃正构醛、 醇的特征离子和对应的最佳E/N设置值, 为低分子量醛、 醇的定性分析提供了重要依据.     

金属组学在急性心肌梗死早期诊断的应用

为探讨急性心肌梗死(AMI)患者血清中K⁺、Na⁺、Ca²⁺、Fe²⁺、Mg²⁺含量变化，并研究其与心肌梗死患者之间的关系。选取2022年5月至2023年2月收治的AMI患者37例，同时选取健康体检者35例作为对照组。依据入院时或体检时收集的抽血样本进行临床生化分析，比较两组间血清K⁺、Na⁺、Ca²⁺、Fe²⁺、Mg²⁺含量，采用判别方程、主成分分析法(PCA),判断分析哪种金属离子对于心肌梗死的诊断价值大。结果表明，AMI患者的血清中Ca²⁺和Fe²⁺含量低于健康对照组，差异具有统计学意义。基于血钙、铁水平两组具有显著性差异，以它们为基础进行判别分析，获得判别函数式。将血清中K⁺、Na⁺、Ca²⁺、Fe²⁺、Mg²⁺     

Cextrant 230从低品位铜矿H2SO4-NaCl浸出液中选择性提取回收铜

助浸剂NaCl可提高硫酸在常温常压下浸取低品位复杂铜矿时铜的浸出率,但也形成了含铜的混酸溶液。二(2-乙基己基)-(N-(2-乙基己基)氨基)甲基膦酸酯(Cextrant230)对混酸(H₂SO₄+HCl)溶液中Cu²⁺、Fe³⁺、Co²⁺、Mg²⁺和Al³⁺的萃取行为进行了研究。结果表明,Cextrant 230对混酸溶液中的Cu²⁺和Fe³⁺具有良好的萃取能力和选择性,而对Co²⁺、Mg²⁺和Al³⁺的萃取能力较弱;Cl^-可促进Cu²⁺的萃取,而SO₄^2-和HSO₄^-对Cu²⁺的萃取起抑制作用;Cu²⁺的萃取过程是放热反应;当水相初始pH值为1.16...     

聚合物分散剂对氟虫脲水悬浮剂分散稳定性的影响

通过测定药物颗粒界面Zeta电位和平均粒径, 研究了聚合物分散剂苯乙烯磺酸聚合物钠盐(GY-D08)用量、pH和盐离子对氟虫脲水悬浮剂分散稳定性的影响, 研究结果表明, 分散剂GY-D08的加入量与水悬浮剂分散效果密切相关, 制备质量分数为5%氟虫脲水悬浮剂的GY-D08最佳用量为2%, GY-D08用量过多或过少都会使分散效果下降; pH影响分散剂GY-D08在水中的电离能力, 当pH=9时, GY-D08分子完全电离, 能为颗粒提供较大的静电位阻, 水悬浮剂分散稳定性最好; Mg²⁺或Ca²⁺压缩颗粒界面的双电层, 降低Zeta电位, 使颗粒因带电量减少而聚结, 导致水悬浮剂分散稳定性变差, 且Mg²⁺或Ca²⁺浓度愈大, 其分散稳定性愈差; 当离子浓度相同时, Ca²⁺压缩双电层的能力比Mg²⁺强, 添加Ca²⁺后的水悬浮剂的分散稳定性更差.     

固定化细胞酶法拆分N-乙酰-D,L-3-甲氧基丙氨酸

利用氨基酰化酶固定化细胞酶法拆分了N-乙酰-D,L-3-甲氧基丙氨酸. 考察了温度、pH值、底物浓度、金属离子和拆分时间对酶促反应的影响. 确定了氨基酰化酶固定化细胞手性拆分N-乙酰-D,L-3-甲氧基丙氨酸的最佳工艺条件为pH=7.0, 反应温度50 ℃及底物浓度500 mmol/L. 10^-4 mol/L的Co²⁺和Mg²⁺对氨基酰化酶有显著激活作用, Cu²⁺和Zn²⁺对酶促反应有明显抑制作用. 在最佳条件下, 氨基酰化酶固定化细胞对N-乙酰-L-3-甲氧基丙氨酸的摩尔转化率达96%.     

Dynamic coupling between the LID and NMP domain motions in the catalytic conversion of ATP and AMP to ADP by adenylate kinase

The catalytic conversion of adenosine triphosphate (ATP) and adenosine monophosphate (AMP) to adenosine diphosphate (ADP) by adenylate kinase (ADK) involves large amplitude, ligand induced domain motions, involving the opening and the closing of ATP binding domain (LID) and AMP binding domain (NMP) domains, during the repeated catalytic cycle. We discover and analyze an interesting dynamical coupling between the motion of the two domains during the opening, using large scale atomistic molecular dynamics trajectory analysis, covariance analysis, and multidimensional free energy calculations with explicit water. Initially, the LID domain must open by a certain amount before the NMP domain can begin to open. Dynamical correlation map shows interesting cross-peak between LID and NMP domain which suggests the presence of correlated motion between them. This is also reflected in our calculated two-dimensional free energy surface contour diagram which has an interesting elliptic shape, revealing a strong correlation between the opening of the LID domain and that of the NMP domain. Our free energy surface of the LID domain motion is rugged due to interaction with water and the signature of ruggedness is evident in the observed root mean square deviation variation and its fluctuation time correlation functions. We develop a correlated dynamical disorder-type theoretical model to explain the observed dynamic coupling between the motion of the two domains in ADK. Our model correctly reproduces several features of the cross-correlation observed in simulations.     

On the conformational stability and dimerization of phosphotransferase enzyme I from Escherichia coli

The activity of enzyme I (EI), the first protein in the bacterial PEP:sugar phosphotransferase system, is regulated by a monomer–dimer equilibrium where a Mg²⁺-dependent autophosphorylation by PEP requires the homodimer. Using inactive EI(H189A), in which alanine is substituted for the active-site His189, substrate binding effects can be separated from those of phosphorylation. Whereas 1 mM PEP (with 2 mM Mg²⁺) strongly promotes dimerization of EI(H189A) at pH 7.5 and 20 °C, 5 mM pyruvate (with 2 mM Mg²⁺) has the opposite effect. A correlation between the coupling of N- and C-terminal domain unfolding, measured by differential scanning calorimetry, and the dimerization constant for EI, determined by sedimentation equilibrium, is observed. That is, when the coupling between N- and C-terminal domain unfolding produced by 0.2 or 1.0 mM PEP and 2 mM Mg²⁺ is inhibited by 5 mM pyruvate, the dimerization constant for EI(H189A) decreases from >10⁸ to <5 × 10⁵ or 3 × 10⁷ M⁻¹, respectively. With 2 mM Mg²⁺ at 15–25 °C and pH 7.5, PEP has been found to bind to one site/monomer of EI(H189A) with K_A′10⁶ M⁻¹ (ΔG′=−33.7±0.2 kJ mol⁻¹ and ΔH=+16.3 kJ mol⁻¹ at 20 °C with ΔC_p=−1.4 kJ K⁻¹ mol⁻¹). The binding of PEP to EI(H189A) is synergistic with that of Mg²⁺. Thus, physiological concentrations of PEP and Mg²⁺ increase, whereas pyruvate and Mg²⁺ decrease the amount of dimeric, active, dephospho-enzyme I.     

Photoinduced reaction in the ion–molecule complex Mg–nitromethane

The intra-complex reaction in Mg⁺-nitromethane by photons in the spectral region of 240–400 nm has been studied. The product Mg⁺, Mg⁺O, Mg⁺OH, and Mg⁺NO₂ were observed. The products Mg⁺ and Mg⁺OH appeared throughout the whole wavelength range, but the product Mg⁺O emerged only in the shorter wavelength region, whereas the product Mg⁺NO₂ in the longer one. The calculated results show that there are the two isomers. The absorption spectrum of the two isomers were calculated, and the isomer, which is with Mg⁺ attached to single O atom, was in good agreement with the experimental data. On the basis of the branching fraction data, the orientation of the electronic orbital, and reaction energies, the photoreaction mechanisms were explained for the Mg⁺ insertion the chemical bonds and the state-specificity.     

Structure and stability of endohedral X@Si20H20 complexes (X = Li, Na, K, Be, Mg, Ca)

The structure and stability of endohedral X@Si₂₀H₂₀ complexes (X = Li^0/+, Na^0/+, K^0/+, Be^0/2+, Mg^0/2+, Ca^0/2+) have been studied at the B3LYP/6-31G* level of density functional theory. It is found that complexes with X = Na^0/+, K^0/+, Mg and Ca^0/2+ are energy minimum structures with X at the cage center in I_h symmetry, while those with X = Li^0/+, Be^0/2+, Mg²⁺ have off-centered structures with X towards one pentagon face in C_5v symmetry. Large electron or charge transfer between the Si₂₀H₂₀ cage and the encapsulated X has been observed.     

金属离子对彩色成像过程的影响

通过测量和计算彩色单层片中成色剂的照相活性、偶合效率以及漂白前银密度等参数,研究了在分散四当量成色剂青(Ⅰ)时掺入金属离子Mg²⁺、Zn²⁺、Fe³⁺和Cu²⁺对彩色青单层片的成像过程中各个化学反应的影响。本实验的结果表明,成色剂中加入的金属离子Cu²⁺和Fe³⁺对成像过程的初始反应中的Ag影像形成产生不利的影响,但它们能促进偶合过程中青(Ⅰ)与显影剂氧化产物作用所生成的隐色体转变成染料的速率。Mg²⁺和Zn²⁺的加入主要是对偶合过程中青(Ⅰ)的偶合效率产生不利的影响。上述原因的综合影响,最终降低了彩色单层片的感光度。     

Boronate affinity adsorption of RNA: possible role of conformational changes

Batch equilibrium adsorption isotherm determination is used to characterize the adsorption of mixed yeast RNA on agarose-immobilized m-aminophenylboronic acid. It is shown that the affinity-enhancing influence of divalent cations depends strongly on the precise nature of the cation used, with barium being far more effective than the conventionally-used magnesium. This adsorption-promoting influence of barium is suggested to arise primarily from ionic influences on the structure and rigidity of the RNA molecule, as the adsorption of ribose-based small molecules is not similarly affected. The substitution of barium for the standard magnesium counterion does not greatly promote the adsorption of DNA, implying that the effect is specific to RNA and may be useful in boronate-based RNA separations. RNA adsorption isotherms exhibit sharp transitions as functions of temperature, and these transitions occur at different temperatures with Mg²⁺ and with Ba²⁺. Adsorption affinity and capacity were found to increase markedly at lower temperatures, suggestive of an enthalpically favored interaction process. The stoichiometric displacement parameter, Z, in Ba²⁺ buffer is three times the value in Mg²⁺ buffer, and is close to unity.     

复合物Mg+-NCSCH3光诱导反应

观察了复合物Mg⁺-NCSCH₃在230~440 nm范围的光解离光谱. 在此波段内的复合物光诱导产物的质谱显示, 存在着非反应猝灭产物Mg⁺和反应产物Mg⁺NC、Mg⁺NCS. 反应产物来源于S－C化学键的断裂. 复合物的光解离光谱由两个对应于原子Mg⁺(3²P←3²S)跃迁的宽峰构成. 由量化计算中的CIS方法所获得的吸收谱理论值与实验值吻合较好.     

钙离子和镁离子浓度变化对磷脂酰乙醇胺-磷脂酰甘油双分子层膜的影响

Ca²⁺ and Mg²⁺ ions are the main divalent cations in living cells and play vital roles in the structure and function of biological membranes. To date, the differences in the effects of these two ions on the Escherichia coli (E. coli) inner membrane at various concentrations remain unknown. Here, the effects of Ca²⁺ and Mg²⁺ ions on a mixed lipid bilayer composed of 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphoethanolamine (POPE) and 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphoglycerol (POPG) in a 3 : 1 ratio (mol/mol), which mimics the E. coli inner membrane, were quantitatively differentiated at different concentrations by dynamic light scattering (DLS), zeta potential measurements and all-atom molecular dynamics (AA-MD) simulations. The DLS results demonstrated that the POPE/POPG liposomes were homogeneous and monodisperse in solutions with Ca²⁺ or Mg²⁺ ion concentrations of 0 and 1 mmol∙L^-1. As the Ca²⁺ or Mg²⁺ ion concentration was increased to 5-100 mmol∙L^-1, lipid aggregation or the fusion of unilamellar liposomes occurred in the ion solutions. The zeta potential measurements showed that both the Ca²⁺ and Mg²⁺ ions had overcharging effects on the negatively charged POPE/POPG liposomes. The AA-MD simulation results indicated that the Ca²⁺ ions irreversibly adsorbed on the membranes when the simulation time was longer than 100 ns, while the Mg²⁺ ions were observed to dynamically adsorb on and desorb from the membranes at various concentrations. These results are consistent with the DLS and zeta potential experiments. The average numbers of Ca²⁺ and Mg²⁺ ions in the first coordination shell of the oxygen atoms of the phosphate, carbonyl and hydroxyl groups of POPE and POPG (i.e., the first coordination numbers) in the pure membrane and membranes containing 5 and 100 mmol∙L^-1 ions were calculated from the radial distribution functions. The results indicated that the primary binding site of these two ions on POPE and POPG at the concentrations studied was the negatively charged phosphate group. Thus, these results might explain the overcharging effects of both the Ca²⁺ and Mg²⁺ ions on the POPE/POPG liposomes. Moreover, as the Ca²⁺ concentration increased, the area per lipid of the lipid bilayers decreased, and the membrane thickness increased, while the Mg²⁺ ions had negligible effects on these membrane parameters. In addition, these ions had different effects on the orientation of the lipid head groups. These simulation results may be used to provide the possible explanations for the differences between Ca²⁺ and Mg²⁺ ions in DLS and zeta potential measurements at the atomic level. The experimental results and MD simulations provide insight into various biological processes regulated by divalent cations, such as membrane fusion.     

Ab initio study on the structures, energies, and vibrational frequencies of acetone complexes with metal monocations and dications

The structures, interaction energies, and vibrational frequencies of acetone and its complexes with proton and various metal monocations/dications such as H⁺, Li⁺, Na⁺, K⁺, Rb⁺, Cs⁺, Be²⁺, Mg²⁺, Ca²⁺, and Zn²⁺ have been investigated from the ab initio calculations. The linear or bent structure for the cation-acetone complexes has been found to be deeply influenced by the amount of charge transfer. The amount of red-shift of CO stretching frequencies of acetone is almost equivalent regardless of the kind of alkali metal monocations. This behavior can be attributed to the electrostatic nature of the interactions rather than orbital interactions. This phenomenon has been supported by the highest occupied molecular orbitals of the acetone complexes investigated, charge transfer based on natural bond orbital (NBO) atomic charges, and the inversely proportional behavior of the interaction energies to the interatomic distances r(M⁺O).