Study of Endogen Substrates,Drug Substrates and Inhibitors Binding Conformations on MRP4 and Its Variants by Molecular Docking and Molecular Dynamics

Multidrug resistance protein-4 (MRP4) belongs to the ABC transporter superfamily and promotes the transport of xenobiotics including drugs. A non-synonymous single nucleotide polymorphisms (nsSNPs) in the ABCC4 gene can promote changes in the structure and function of MRP4. In this work, the interaction of certain endogen substrates, drug substrates, and inhibitors with wild type-MRP4 (WT-MRP4) and its variants G187W and Y556C were studied to determine differences in the intermolecular interactions and affinity related to SNPs using protein threading modeling, molecular docking, all-atom, coarse grained, and umbrella sampling molecular dynamics simulations (AA-MDS and CG-MDS, respectively). The results showed that the three MRP4 structures had significantly different conformations at given sites, leading to differences in the docking scores (DS) and binding sites of three different groups of molecules. Folic acid (FA) had the highest variation in DS on G187W concerning WT-MRP4. WT-MRP4, G187W, Y556C, and FA had different conformations through 25 ns AA-MD. Umbrella sampling simulations indicated that the Y556C-FA complex was the most stable one with or without ATP. In Y556C, the cyclic adenosine monophosphate (cAMP) and ceefourin-1 binding sites are located out of the entrance of the inner cavity, which suggests that both cAMP and ceefourin-1 may not be transported. The binding site for cAMP and ceefourin-1 is quite similar and the affinity (binding energy) of ceefourin-1 to WT-MRP4, G187W, and Y556C is greater than the affinity of cAMP, which may suggest that ceefourin-1 works as a competitive inhibitor. In conclusion, the nsSNPs G187W and Y556C lead to changes in protein conformation, which modifies the ligand binding site, DS, and binding energy.     

Nd-四甘醇醛缩苯丙氨酸Schiff碱配合物与DNA相互作用的光谱研究

研究了Nd-四甘醇醛缩苯丙氨酸Schiff碱配合物(NdL)与天然和变性DNA的相互作用.在DNA存在下,测定了NdL的紫外吸收光谱(UV)和荧光激发光谱(FL).利用紫外滴定法,测定了NdL与DNA的结合常数.在20mmol/L Tris-HCl缓冲溶液(pH=7.0),Nd-四甘醇醛缩苯丙氨酸Schiff碱配合物与小牛胸腺DNA的结合常数为4.11×103L/mol,化合物本身的UV和FL峰强度减小.NdL与DNA的作用模式为"静电引力".     

La1-xNdxSrCoO4催化剂的合成及其催化性能

采用聚丙烯胺溶胶-凝胶法制备了类钙钛矿La1-xNDxSrCoO4(x=0.1～0.9)复合氧化物催化剂,考察了其对CO和C3H8的催化氧化活性,并运用XRD、IR和TPR等手段对催化剂进行了表征.结果表明,所制备的样品均具有K2NiF4型结构,适量Nd2O3的加入增加了LaSrCoO4的催化活性,使LaSrCoO4催化剂粒度变小、晶格畸变率变大及与氧的结合能力减弱,从而有利于CO和C3H8氧化活性的提高.     

Quadrupole interactions at 57Fe and 119Sn in 3d-metal antimonides

3d-metal antimonides: Fe_1+x Sb, N_+x Sb, Co_+x Sb and the (Ni_1?y Fe _y )Sb solid solution have been studied by the Mössbauer effect method at ⁵⁷Fe and ¹¹⁹Sn. It was found that the quadrupole interactions at the Fe and Sn nucleus in 3d-metal antimonides are very sensitive to the filling of different crystallographic sites with metal atoms. The metal atoms in trigonal-bipyramidal sites have a strong effect on the quadrupole splitting of ¹¹⁹Sn. They are nearest to anions (Sb or Sn) with the typical axial ratio of c/a = 1.25. The QS(x) dependence of ¹¹⁹ Sn in 3d-metal antimonides in the 0 ≤ x ≤ 0.1 concentration range can be used to determine x – the concentration of transition metal excess relative to the stoichiometric composition.     

Fluorescence line narrowed spectra of Zn and metal-free cytochrome c

Fluorescence line narrowing (FLN) spectroscopy was used to study the role of the polypeptide chain in influencing the spectrum of Zn-substituted cytochrome c (Zn cyt c) and metal-free cyt c (porphyrin cyt c). For both derivatives the spectra show characteristics of relaxed fluorescence from an inhomogeneously broadened sample. Zero phonon lines and phonon wings can be clearly distinguished, and vibrational frequencies of the ground and excited states were identified. The inhomogeneous distribution width for porphyrin cyt c is slightly wider than that of Zn cyt c and a second population of molecules was apparent in the porphyrin cyt c. The phonon coupling was greater for Zn cyt c than for porphyrin cyt c, which may be due to the extra coupling to the polypeptide chain by metal ligation.This work has been done in partial fulfillment of the requirements for the Doctor of Philosophy degree.     

生物小分子与铜锌超氧化物歧化酶相互作用的波谱学研究及其应用

本工作以ESR和NMR为主要手段,并结合其它生化方法,考察了氨基酸、核酸碱基、糖等生命基本物质,和抗坏血酸等生命必需物质与钢锌超氧化物歧化酶的相互作用,实验观测到氨基酸、核酸碱基和抗坏血酸在水溶液中可以与酶中的Cu²⁺作用而使其脱离活性部位,以小分子络合物形式游离在溶液中,同时使酶失活,脱离活性部位的Cu²⁺的比例和酶的失活程度取决于小分子配体的加入量及其与Cu²⁺的络合能力。此外,首次尝试使用ESR方法,并借助氨基酸与酶的作用,考察了铜锌超氧化物歧化酶在盐酸胍变性和热变性过程中的构象变化行为,结果表明这一方法是直观而有效的。     

A two-echelon base-stock inventory model with Poisson demand and the sequential processing of orders at the upper echelon

We consider a two-echelon inventory system with a number of non-identical, independent ‘retailers’ at the lower echelon and a single ‘supplier’ at the upper echelon. Each retailer experiences Poisson demand and operates a base stock policy with backorders. The supplier manufactures to order and holds no stock. Orders are produced, in first-come first-served sequence, with a fixed production time. The supplier therefore functions as an M/D/1 queue. We are interested in the performance characteristics (average inventory, average backorder level) at each retailer. By finding the distribution of order lead time and hence the distribution of demand during order lead time, we find the steady state inventory and backorder levels based on the assumption that order lead times are independent of demand during order lead time at a retailer. We also propose two alternative approximation procedures based on assumed forms for the order lead time distribution. Finally we provide a derivation of the steady state inventory and backorder levels which will be exact as long as there is no transportation time on orders between the supplier and retailers. A numerical comparison is made between the exact and approximate measures. We conclude by recommending an approach which is intuitive and computationally straightforward.     

连续信息基

D.Scott在20世纪60年代引入了domain理论,并给出了两种等价形式——信息系统和邻域系。在型论(typetheory)基础上,G.Sambin提出了形式拓扑(Formal topology)理论,并证明了一元形式拓扑与代数Scott domain等价,从而推出代数信息基的概念,同时作为信息系统与邻域系的推广。本文从信息基的观点出发,提出了连续信息基的概念,证明了它与连续Scott domain的等价性。     

低碳醇合成Raney Cu－Co催化剂的表征

本文采用ＸＲＤ、ＸＰＳ、及Ｈ_２—ＴＰＤ技术对不同Ｃｕ／Ｃｏ比的几个ＲａｎｅｙＣｕ－Ｃｏ催化剂进行了表征．并与反应醇选择性进行了关联．结果表明：ＲａｎｅｙＣｕ－Ｃｏ催化剂均由不同Ｃｕ／Ｃｏ比的两个Ｃｕ－Ｃｏ固溶体相组成，还原（Ｈ_２，５６３Ｋ，２ｈ）前，表面除有Ｃｕ￣０和Ｃｏ￣０外，尚有少量Ｃｕ￣（＋１）和显著量的Ｃｏ￣（＋２）存在，还原后，Ｃｕ￣（＋１）几乎消失，Ｃｏ￣（＋２）仍有一定量存在，在反应温度下（５６３Ｋ），ＣＯ和ＣＯ_２均能使表面Ｃｏ￣０部分氧化，且ＣＯ_２氧化能力大于ＣＯ，而合成气（Ｈ_２／ＣＯ＝２）表现为还原的性质。三种气氛对Ｃｕ￣０无明显影响。催化剂表面Ｃｕ／Ｃｏ比高于体相Ｃｕ／Ｃｏ比，表面Ｃｕ富集显著．ＲａｎｅｙＣｕ－Ｃｏ催化剂表面有四种吸氢中心：Ｃｕ（弱吸氢中心），高配位Ｃｏ（弱吸氢中心），低配位Ｃｏ（活化吸氢中心），及强吸氢中心；对不同催化剂，表面低配位Ｃｏ中心的比例与醇选择性有一致的变化规律。基于上述结果，就ＣＯ播入中心进行了讨论。     

Establishing structure-property correlations and classification of base oils using statistical techniques and artificial neural networks

The present paper describes various classification techniques like cluster analysis, principal component (PC)/factor analysis to classify different types of base stocks. The API classification of base oils (Group I-III) has been compared to a more detailed NMR derived chemical compositional and molecular structural parameters based classification in order to point out the similarities of the base oils in the same group and the differences between the oils placed in different groups. The detailed compositional parameters have been generated using and nuclear magnetic resonance (NMR) spectroscopic methods. Further, oxidation stability, measured in terms of rotating bomb oxidation test (RBOT) life, of non-conventional base stocks and their blends with conventional base stocks, has been quantitatively correlated with their NMR and elemental (sulphur and nitrogen) data with the help of multiple linear regression (MLR) and artificial neural networks (ANN) techniques. The MLR based model developed using NMR and elemental data showed a high correlation between the ‘measured’ and ‘estimated’ RBOT values for both training (R=0.859) and validation (R=0.880) data sets. The ANN based model, developed using fewer number of input variables (only NMR data) also showed high correlation between the ‘measured’ and ‘estimated’ RBOT values for training (R=0.881), validation (R=0.860) and test (R=0.955) data sets.