精氨酸侧链与生物小分子间离子氢键强度的快速计算

提出了1种快速模拟生物分子间离子氢键作用的新方法,并将该方法用于计算模拟带有1个正电荷的精氨酸侧链与甘氨酸二肽分子、碱基尿嘧啶分子、碱基胸腺嘧啶分子等中性分子间的N—H…O=C离子氢键相互作用.计算结果表明:新方法可以快速计算带电精氨酸侧链分子和甘氨酸二肽分子、碱基尿嘧啶分子、碱基胸腺嘧啶分子间形成的N—H…O=C离子氢键的平衡氢键键长和分子间相互作用能;得到的平衡氢键键长与从头计算MP2/6-31+G(d,p)方法得到的平衡氢键键长的绝对偏差均小于0.005nm;分子间相互作用能与从头计算MP2.5/CBS方法得到的分子间相互作用能的绝对误差均小于8.2kJ/mol,相对偏差均小于5.5%;在同等计算条件下,新方法的计算效率比从头计算方法快数千倍以上.这些结果表明新方法准确快捷,在生物大分子体系的分子模拟领域有潜在应用价值.     

尿素与甘氨酸二肽相互作用的量子化学研究

应用高水平量子化学计算方法 MP2/6-311++G(d,p)//B3LYP/6-311++G(d,p)对尿素与甘氨酸二肽形成的复合物Urea(Gly)2进行了结构优化和频率计算.结果表明:尿素与甘氨酸二肽之间通过3种类型的氢键形成稳定复合物:第1种是甘氨酸二肽的氧与尿素的氢形成的OG…HU,第2种是尿素中的氧与甘氨酸二肽中亚氨基的氢形成的OU…HNG,第3种是由尿素中的氧与甘氨酸二肽中的甲基氢形成的OU…HCG.氢键强度为OU…HNGOG…HUOU…HCG.在Urea(Gly)2复合物中形成氢键位置上的原子的电荷变化明显.复合物所含氢键强度越大,结合能越大.     

甘氨酸-α-二肽构象稳定性的理论研究

二肽分子CH3CO[NHCH2CO]NHCH3中的结构基元[NHCH2CO]是甘氨酸-α-多肽的基本重复单元.其中二面角ψ和ψ的不同取值决定了多肽的不同构象.使用B3LYP/6-311G(d,p)方法对二肽分子CH3CO[NHCH2CO]NHCH3的所有可能稳定构象进行了研究,分析了二肽分子CH3CO[NHCH2CO]NHCH3的不同稳定构象的相对稳定性,从分子内氢键作用、大基团间的空间位阻以及库仑作用角度探讨了影响二肽构象稳定性的因素.结果表明:甘氨酸-α-二肽中构象的相对稳定性主要取决于分子内氢键作用和ψ角的空间位阻.ψ角的空间位阻不起决定作用.因此在多肽分子的分子模拟中,如何准确合理地描述ψ角的空间位阻是今后分子模拟工作者要解决的重点课题.     

碱基与氨基酸二肽间的氢键相互作用

对于碱基-蛋白质之间的相互作用,氢键的形成及断裂起着重要的作用.选取7种氨基酸二肽和3种碱基,以它们之间形成单根氢键的体系为研究对象,在ab initioB3LYP/6-311++G(d,p)水平下进行结构优化,MP2/6-311++G(d,p)水平下进行能量的计算.同时应用ABEEMσπ/MM方法优化结构和计算能量.通过改变氢键相互作用区域的静电相互作用参数kH-bond和形成氢键的氢原子与其受体原子的孤对电子之间距离Rlp,H来拟合函数kH-bond(Rlp,H).用所得函数对选取的复合物进行结合能计算,其结果与ab initio方法所得的结果符合的很好.     

配合物稳定性和配体碱性之间的直线自由能关系——铜(Ⅱ)—水杨醛缩氨基硫脲—α—氨基酸三元体系

在25±0.1℃,Ⅰ=0.1mol·dm~(-3)KNO_3条件下,在80％(V/V)DMSOH_2O混合溶剂中,应用pH电位法测定了水杨醛缩氨基硫脲(缩写H_2L,记为A配体),α-氨基酸(缩写α-AA,记为B配体)的酸性离解常数,铜(Ⅱ)—水杨醛缩氨基硫脲,铜(Ⅱ)-α-氨基酸二元配合物和铜(Ⅱ)—水杨醛缩氨基硫脲-α-氨基酸三元配合物的稳定常数。所用的α-氨基酸有甘氨酸,缬氨酸,脯氨酸,丝氨酸和苯丙氨酸。实现发现在logβ_102与PK_2~B,logβ_111与PK_2~B及logβ_111与logβ_102三对参数之间均存在良好的直线自由能关系。用△logK_M和△logβ_111描述了三元配合物相对于二元母体配合物的稳定性。应用溶剂的性质,配体间的疏水作用和堆积作用讨论了配合物的稳定性。     

基于含氮羧酸配体碱土金属配合物的研究进展

基于配位作用以及配体之间的多种弱相互作用(如氢键、π-π堆垛作用等),金属离子与有机配体之间经自组装形成结构新颖、性能独特的金属—有机超分子配合物,本文主要介绍了配位化学和金属—有机超分子框架结构的基本原理及其研究方法。     

一个有机化合物晶体中的弱相互作用——兼论葫芦脲（瓜环）超分子化学

分子间的弱相互作用是指在有机化合物中除共价键外的氢键、π-π堆积、受体-供体相互作用、静电作用和疏溶剂作用等,这些相互作用是形成超分子化学的基础.以实例介绍了分子间的弱相互作用的类型和在超分子化学中的作用.     

配合物的稳定性与配体碱性之间的直线自由能关系——锌(Ⅱ)—芬布芬—α—氨基酸三元体系

在25±0.1℃,1=0.1 mol·L~(-1) KNO_3条件下,在80％(V/V)DMSO—H_2O混合溶剂中,应用pH法测定了甘氨酸,L—缬氨酸,L—丙氨酸,L—脯氨酸,L—丝氨酸和DL—笨丙氨酸等α—氨基酸(缩写为α—AA,记为B配体)的酸离解常数,Zn(Ⅱ)—α—AA二元配合物和锌(Ⅱ)—芬布芬—α—氨基酸三元配合物(芬布芬缩写为Fen记为A配体)的稳定常数。实验发现在logβ_(102)与pK_2~B,logβ_(111)与pK_2~B及logβ_(111)与logβ_(102)三对参数之间均存在良好的直线自由能关系,用△logK_M和△logβ_(111)二个参数描述了三元配合物相对于二元母体配合物的稳定性,讨论了溶剂的性质、配体分子间的疏水作用、堆积作用对配合物稳定性的影响。     

甘氨酸与6-硫嘌呤氢键作用的密度泛函理论研究

在B3LYP/6-31+G*水平上对6-硫嘌呤与甘氨酸氢键作用的几何结构、电子结构、红外光谱等性质进行了研究,并在B3LYP/6-311++G**水平上做单点能计算.得到6-硫嘌呤与甘氨酸氢键作用的选择性为:4123,稳定性顺序与氢键作用顺序一致.二聚物在298.15 K时分布分数为:35%(1)、2%(2)、1%(3)、62%(4),与稳定性顺序一致.自然键轨道(NBO)分析表明氢键质子给体X-H键长变化与轨道间作用的"伸长效应"和轨道杂化重优的"收缩效应"有关,同时,利用H-index对氢键类型进行归属.AIM电子密度拓扑分析表明,Y…H间存在键鞍点,且电子密度和Laplacian量都落在氢键范围之内.     

蛋白质-核酸复合物氢键与范德华力作用位点分析

为了深入了解蛋白质-核酸相互作用模式,对复合物结构中氢键/范德华力作用力位点上的氨基酸和核苷酸的偏好性(即相对使用频率)进行了统计分析.结果表明:氢键/范德华力作用位点上对氨基酸的偏好性差异均极其显著,与蛋白质-核酸特异作用密切相关的残基侧链与核苷酸碱基间相互作用力位点对氨基酸类型的选择特异性更高;单链RNA分子与蛋白...     

Markedness and its Interpretation in Language Use

Language markedness is a common phenomenon in languages, and is reflected from hearing, vision and sense, i.e. the variation in the three aspects such as phonology, morphology and semantics. This paper focuses on the interpretation of markedness in language use following the three perspectives, i.e. pragmatic interpretation, psychological interpretation and cognitive interpretation, with an aim to define the function of markedness.     

Characterization of Ordovician carbonate reservoirs, southeastern Saskatchewan, Canada

The discovery of the prolific Ordovician Red River reservoirs in 1995 in southeastern Saskatchewan was the catalyst for extensive exploration activity which resulted in the discovery of more than 15 new Red River pools. The best yields of Red River production to date have been from dolomite reservoirs. Understanding the processes of dolomitization is, therefore, crucial for the prediction of the connectivity, spatial distribution and heterogeneity of dolomite reservoirs.The Red River reservoirs in the Midale area consist of 3～4 thin dolomitized zones, with a total thickness of about 20 m, which occur at the top of the Yeoman Formation. Two types of replacement dolomite were recognized in the Red River reservoir: dolomitized burrow infills and dolomitized host matrix. The spatial distribution of dolomite suggests that burrowing organisms played an important role in facilitating the fluid flow in the backfilled sediments. This resulted in penecontemporaneous dolomitization of burrow infills by normal seawater. The dolomite in the host matrix is interpreted as having occurred at shallow burial by evaporitic seawater during precipitation of Lake Almar anhydrite that immediately overlies the Yeoman Formation. However, the low δ18O values of dolomited burrow infills (-5.9‰～ -7.8‰, PDB) and matrix dolomites (-6.6‰～ -8.1‰, avg. -7.4‰ PDB) compared to the estimated values for the late Ordovician marine dolomite could be attributed to modification and alteration of dolomite at higher temperatures during deeper burial, which could also be responsible for its 87Sr/86Sr ratios (0.7084～0.7088) that are higher than suggested for the late Ordovician seawaters (0.7078～0.7080). The trace amounts of saddle dolomite cement in the Red River carbonates are probably related to "cannibalization" of earlier replacement dolomite during the chemical compaction.     

Features of Women's language

Language is a means of verbal communication. People use language to communicate with each other. In the society, no two speakers are exactly alike in the way of speaking. Some differences are due to age, gender, statue and personality. Above all, gender is one of the obvious reasons. The writer of this paper tries to describe the features of women＇s language from these perspectives： pronunciation, intonation, diction, subjects, grammar and discourse. From the discussion of the features of women＇s language, more attention should be paid to language use in social context. What＇s more, the linguistic phenomena in a speaking community can be understood more thoroughly.     

A computer generator for randomly layered structures

AcomputergeneratorforrandomlylayeredstructuresYUJia shun1,2,HEZhen hua2(1.TheInstituteofGeologicalandNuclearSciences,NewZealand;2.StateKeyLaboratoryofOilandGasReservoirGeologyandExploitation,ChengduUniversityofTechnology,China)Abstract:Analgorithmisintrod…     

低渗透非均质砂岩油藏启动压力梯度研究

理论推导与室内实验相结合,建立了低渗透非均质砂岩油藏启动压力梯度确定方法。首先借助油藏流场与电场相似的原理,推导了非均质砂岩油藏启动压力梯度计算公式。其次基于稳定流实验方法,建立了非均质砂岩油藏启动压力梯度测试方法。结果表明:低渗透非均质砂岩油藏的启动压力梯度确定遵循两个等效原则。平面非均质油藏的启动压力梯度等于各级渗透率段的启动压力梯度关于长度的加权平均;纵向非均质油藏的启动压力梯度等于各渗透率层的启动压力梯度关于渗透率与渗流面积乘积的加权平均。研究成果可用于有效指导低渗透非均质砂岩油藏的合理井距确定,促进该类油藏的高效开发。     

On Tragic Consciousness In The Works By Ernest Hemingway

As an American modern novelist who were famous in the literary world, Hemingway was not a person who always followed the trend but a sharp observer. At the same time, he was a tragedy maestro, he paid great attention on existence, fate and end-result. The dramatis personae's tragedy of his works was an extreme limit by all means tragedy on the meaning of fearless challenge that failed. The beauty of tragedy was not produced on the destruction of life, but now this kind of value was in the impact activity. They performed for the reader about the tragedy on challenging for the limit and the death.     

海南岛地体及其毗邻陆缘晚中生代—新生代古地磁研究和构造演化

本文叙述了对海南岛及其毗邻大陆边缘白垩纪到第四纪地层岩石进行古地磁研究的全部工作过程。通过分析岩石中剩余磁矢量的磁偏角及磁倾角的变化,提出海南岛白垩纪以来经历的构造演化模式如下:早期伴随顺时针旋转而向南迁移,后期伴随逆时针转动并向北运移。联系该地区及邻区的地质、地球物理资料,对海南岛上述的构造地体运动提出以下认识:北部湾内早期有一拉张作用,主要是该作用使湾内地壳显著伸长减薄,形成北部湾盆地。从而导致了海南岛的早期构造运动,而海南岛后期的构造运动则主要是受南海海底扩张的影响。海南地体运动规律的阐明对于了解北部湾油气盆地的形成演化有重要的理论和实际意义。     

An Index mechanism for multi-scale view in spatial databases

There are numerous geometric objects stored in the spatial databases. An importance function in a spatial database is that users can browse the geometric objects as a map efficiently. Thus the spatial database should display the geometric objects users concern about swiftly onto the display window. This process includes two operations:retrieve data from database and then draw them onto screen. Accordingly, to improve the efficiency, we should try to reduce time of both retrieving object and displaying them. The former can be achieved with the aid of spatial index such as R-tree, the latter require to simplify the objects. Simplification means that objects are shown with sufficient but not with unnecessary detail which depend on the scale of browse. So the major problem is how to retrieve data at different detail level efficiently. This paper introduces the implementation of a multi-scale index in the spatial database SISP (Spatial Information Shared Platform) which is generalized from R-tree. The difference between the generalization and the R-tree lies on two facets: One is that every node and geometric object in the generalization is assigned with a importance value which denote the importance of them, and every vertex in the objects are assigned with a importance value,too. The importance value can be use to decide which data should be retrieve from disk in a query. The other difference is that geometric objects in the generalization are divided into one or more sub-blocks, and vertexes are total ordered by their importance value. With the help of the generalized R-tree, one can easily retrieve data at different detail levels.Some experiments are performed on real-life data to evaluate the performance of solutions that separately use normal spatial index and multi-scale spatial index. The results show that the solution using multi-scale index in SISP is satisfying.     

《Chinese Science Bulletin》SUBJECT INDEX TO VOLUME 59(2014)

正~~     

Achieving Unusual States of Matter Under High Pressure

The elongation method,originally proposed by Imamura was further developed for many years in our group.As a method towards O(N)with high efficiency and high accuracy for any dimensional systems.This treatment designed for one-dimensional(ID)polymers is now available for three-dimensional(3D)systems,but geometry optimization is now possible only for 1D-systems.As an approach toward post-Hartree-Fock,it was also extended to