The computer program LUDI: A new method for the de novo design of enzyme inhibitors

Summary A new computer program is described, which positions small molecules into clefts of protein structures (e.g. an active site of an enzyme) in such a way that hydrogen bonds can be formed with the enzyme and hydrophobic pockets are filled with hydrophobic groups. The program works in three steps. First it calculates interaction sites, which are discrete positions in space suitable to form hydrogen bonds or to fill a hydrophobic pocket. The interaction sites are derived from distributions of nonbonded contacts generated by a search through the Cambridge Structural Database. An alternative route to generate the interaction sites is the use of rules. The second step is the fit of molecular fragments onto the interaction sites. Currently we use a library of 600 fragments for the fitting. The final step in the present program is the connection of some or all of the fitted fragments to a single molecule. This is done by bridge fragments. Applications are presented for the crystal packing of benzoic acid and the enzymes dihydrofolate reductase and trypsin.     

过渡金属配合物催化剂及其分子设计构思的发展与相互作用

讨论了某些不对称合成和α－烯烃定向配位聚合及α－烯烃氢甲酰化的过渡金属配合物向络合催化剂的发展与催化剂分子设计构思的发展及相互促进作用，并藉以说明过渡金属配合物定向络合物催化剂的分子设计已具备向计算机辅助设计发展的科学基础。     

Separation of closely related structural isomers by inclusion complexation with tailor-made host compounds. Crystal structures of 2,2-di (p-hydroxyphenyl) propane and Its 1:1 complex withp-cresol

The crystal structures of the 2,2-di(p-hydroxyphenyl)propane host and its 1:1 adducts withm-andp-cresol guests have been studied. The preferential complexation of this host withp-cresol overm-cresol is related to the opposite trend exhibited by 1,1-di(p-hydroxyphenyl)cyclohexane; both hosts can separate effectively the two cresols from their liquid mixture by crystalline inclusion. A plausible explanation of the different inclusion features is provided by examining the intermolecular association in the corresponding solids. The analysed structures are stabilized by strong and continuous H-bonding between the constituent entities along two dimensions, and by weak van der Waals forces along the third axis. The p-cresol complex of the title host reveals a unique arrangement within and a more efficient packing of the layered structure, and thus represents a more stable and less soluble crystal lattice than itsm-cresol analog. Supplementary Data relating to this article are deposited with the British Library as Supplementary Publication No. SUP 82099 (8 pages).     

Room‐Temperature Solution‐Processed PbS Quantum Dot Solar Cells

Colloidal quantum dots (CQDs) are attractive absorber materials for high‐efficiency photovoltaics because of their facile solution processing, bandgap tunability due to quantum confinement effect, and multi‐exciton generation. To date, all published performance records for PbS CQDs solar cells have been based on the conventional hot‐injection synthesis method. This method usually requires relatively strict conditions such as high temperature and the utility of expensive source material (pyrophoric bis(trimethylsilyl) sulfide (TMS‐S)), limiting the potential for large‐scale and low‐cost synthesis of PbS CQDs. Here we report a facile room‐temperature synthetic method to produce high‐quality PbS CQDs through inexpensive ionic source materials including Pb(NO₃)₂ and Na₂S in the presence of triethanolamine (TEA) as the stabilizing ligand. The PbS CQDs were successfully prepared with an average particle size of about 5 nm. Solar cells based on the as‐synthesized PbS CQDs show a preliminary power conversion efficiency of 1.82%. This room‐temperature and low‐cost synthesis of PbS CQDs will further benefit the development of solution‐processed CQD solar cells.     

Lamination Design Optimization for Continuous Fiber Reinforced Composites of Variable Thicknesses北大核心CSCD

由于具备高的比强度、比刚度,利用连续纤维增强复合材料代替传统金属材料以实现结构轻量化正受到设计者们的广泛关注。然而,结构的复杂性给复合材料的铺层设计与优化带来了很大的挑战。针对航空用复合材料铺层设计约束多的问题,通过逐步构建设计变量准确表达结构的铺层信息。基于经典遗传算法框架,结合各设计变量特点,定义了铺层优化算法中的遗传算子,通过引入“修复”策略保证了每一代解都能满足设计约束,分布在可行域区间内。最后利用精英保留策略提高了算法的局部寻优能力,可以降低复杂复合材料结构铺层设计的计算成本。通过解决经典benchmark问题并与已有优化结果的比较,验证了前述铺层优化算法的全局、局部寻优能力,为工程实际中的复合材料铺层设计优化提供了理论支撑。     

A genetic algorithm for the automated generation of molecules within constraints

Summary A genetic algorithm has been designed which generates molecular structures within constraints. The constraints may be any useful function, for example an enzyme active site, a pharmacophore or molecular properties from pattern recognition or rule-induction analyses. The starting point may be random or may utilise known molecules. These are modified to grow into families of structures which, using the evolutionary operators of selection, crossover and mutation evolve to better fit the constraints. The basis of the algorithm is described together with some applications in lead generation, 3D database construction and drug design. Genetic algorithms of this type may have wider applications in chemistry, for example in the design and optimisation of new polymers, materials (e.g. superconducting materials) or synthetic enzymes.     

Sampled-data minimumH ∞-norm regulation of linear continuous-time systems using multirate-output controllers

This paper deals with the problem of designing multirate-output contrlleers for sampled-dataH -optimal control of linear continuous-time systems. Two formulations of the problem are studied. In the first, the intersample behavior of the disturbance and the controlled output signals is not considered, whereas in the second the continuous-time nature of these signals is taken into account. It is shown that, in both cases and unter appropriate conditions, it is plausible to reduce the repective initial problem to an associated discrete-timeH -optimization problem for which a fictitious static state feedback controller is to be designed. This fact has a beneficial influence on the theoretical and numerical complexity of the problem, since only one algebraic Riccati equation is to be solved here, as compared to two algebraic Riccati equations needed in known techniques concerning theH -optimization problem with dynamic measurement feedback.The work described in this paper has been partially funded by the General Secretariat for Research and Technology of the Greek Ministry of Industry, Research, and Technology and by the Heracles General Cement Company of Greece.     

Structure-based identification and clustering of protein families and superfamilies

Summary We describe an approach to protein structure comparison designed to detect distantly related proteins of similar fold, where the procedure must be sufficiently flexible to take into account the elasticity of protein folds without losing specificity. Protein structures are represented as a series of secondary structure elements, where for each element a local environment describes its relations with the elements that surround it. Secondary structures are then aligned by comparing their features and local environments. The procedure is illustrated with searches of a database of 468 protein structures in order to identify proteins of similar topology to porcine pepsin, porphobilinogen deaminase and serum amyloid P-component. In all cases the searches correctly identify protein structures of similar fold as the search proteins. Multiple cross-comparisons of protein structures allow the clustering of proteins of similar fold. This is exemplified with a clustering of /- and -class protein structures. We discuss applications of the comparison and clustering of three-dimensional protein structures to comparative modelling and structure-based protein design.     

“虚实结合”的EDA课程设计实验教学案例

为提高学生的工程实践能力,我校EDA课程设计结合自研在线教学平台,采用案例式教学方式,锻炼和培养学生对EDA开发工具综合运用的能力和动手实践能力。EDA课程案例包括Matlab设计仿真、Modelsim仿真及D/A电路设计调试等EDA完整工程设计流程,线上实验平台提供远程硬件调试功能,学生可以随时随地通过线上实验平台对设计进行验证并与教师进行在线交流。该案例的成功实施有助于虚实结合的实践教学方法探索。     

“通信与电子信息科技英语”混合教学设计

基于“通信与电子信息科技英语”课程教学,提出了适用于该课程的线上线下混合教学设计。首先分析了课程的特点和存在的问题,并以混合式课程教学目标为基础,提出了混合教学设计的内容,包括：线上和线下教学内容分配、混合教学资源建设、混合教学活动设计以及课程考核设计。