|
|
|
题名
|
作者
|
年代
|
出处
|
被引量
|
| 1 | Network analysis of protein-protein interaction显示文摘Residue networks are constructed by defining the residues as the vertices and atom contacts between them as the edges. The residue network of a protein complex is divided into two types of networks, i.e. the hydrophobic and the hydrophilic residue networks. By analyzing the network parameters, it is found that the correct binding complex conformations are of both higher sum of the interface degree values and lower characteristic path length than those incorrect ones. These features reflect that the correct bind-ing complex conformations have better geometric and/or residue type complementarity, and the correct binding modes are very important for preserving the characteristic path lengths of native protein complexes. In addition, two scoring terms are proposed based on the network parameters, in which the characteristics of the entire complex shape and residue type complementarity are taken into account. These network-based scoring terms have also been used in conjunction with other scoring terms, and the new multi-term scoring HPNCscore is devised in this work. It can improve the discrimination of the combined scoring function of RosettaDock more than 12%. This work might enhance our knowledge of the mechanisms of protein-protein interactions and recognition. | Shan Chang XinQi Gong Xiong Jiao ChunHua Li WeiZu Chen CunXin Wang | 2010 | Chinese Science Bulletin2010，55，9： | 3 |
| 2 | Prediction of PK-specific phosphorylation site based on information entropy显示文摘Phosphorylation is a crucial way to control the activity of proteins in many eukaryotic organisms in vivo. Experimental methods to determine phosphorylation sites in substrates are usually restricted by the in vitro condition of enzymes and very intensive in time and labor. Although some in silico methods and web servers have been introduced for automatic detection of phosphorylation sites, sophisticated methods are still in urgent demand to further improve prediction performances. Protein primary se-quences can help predict phosphorylation sites catalyzed by different protein kinase and most com-putational approaches use a short local peptide to make prediction. However, the useful information may be lost if only the conservative residues that are not close to the phosphorylation site are consid-ered in prediction, which would hamper the prediction results. A novel prediction method named IEPP (Information-Entropy based Phosphorylation Prediction) is presented in this paper for automatic de-tection of potential phosphorylation sites. In prediction, the sites around the phosphorylation sites are selected or excluded by their entropy values. The algorithm was compared with other methods such as GSP and PPSP on the ABL, MAPK and PKA PK families. The superior prediction accuracies were ob-tained in various measurements such as sensitivity (Sn) and specificity (Sp). Furthermore, compared with some online prediction web servers on the new discovered phosphorylation sites, IEPP also yielded the best performance. IEPP is another useful computational resource for identification of PK-specific phosphorylation sites and it also has the advantages of simpleness, efficiency and con-venience. | WANG MingHui, LI ChunHua, CHEN WeiZu & WANG CunXin College of Life Science and Bioengineering, Beijing University of Technology, Beijing 100022, China | 2008 | Science China(Life Sciences)2008，51，1： | 3 |
| 3 | Sputtering Angular Distributions of Individual Elements for Low-Energy Ar Ion Irradiation of PtCu Alloy显示文摘The dynamic Monte Carlo program including a bombardment-induced Gibb-sian segregation process was used to^calculate angular distributions of individual elements from 3putlcrcd Cuq^PIq^alloy in the Ar ion energy range between 0.2 and 1.5ke V.Calculated results show that for each investigated incident energy,the angular distribution of the Pt element is more forward-pointed than that of the Cu one;the reason may be that different percentage of sputtered atoms(37-45% of Pt and 12-19% of Cu)come from beneath the topmost layer. | ZHENG Liping LI Risheng LI Mingyao SHEN Weizu LIN Junying ZOU Zhiyi | 1991 | Chinese Physics Letters1991，8，1： | 2 |
| 4 | A holistic molecular docking approach for predicting protein-protein complex structure显示文摘A holistic protein-protein molecular docking approach,HoDock,was established,composed of such steps as binding site prediction,initial complex structure sampling,refined complex structure sampling,structure clustering,scoring and final structure selection.This article explains the detailed steps and applications for CAPRI Target 39.The CAPRI result showed that three predicted binding site residues,A191HIS,B512ARG and B531ARG,were correct,and there were five submitted structures with a high fraction of correct receptor-ligand interface residues,indicating that this docking approach may improve prediction accuracy for protein-protein complex structures. | GONG XinQi,LIU Bin,CHANG Shan,LI ChunHua,CHEN WeiZu & WANG CunXin* College of Life Science and Bioengineering,Beijing University of Technology,Beijing 100124,China | 2010 | Science China(Life Sciences)2010，53，9： | 2 |
| 5 | Protective effects of ginsenoside Rg1 on chronic restraint stress induced learning and memory impairments in male mice显示文摘 | Yuchan Wang Hongwei Kan Yanyan Yin Wangyang Wu Wen Hu Mingming Wang Weiping Li Weizu Li | 2014 | Pharmacology, Biochemistry and Behavior2014，，： | 1 |
| 6 | Protective effects of astragalosides on dexamethasone and Aβ25-35induced learning and memory impairments due to decrease amyloid precursor protein expression in 12-month male rats显示文摘 | Li Weizu Wu Wangyang Huang Dake | 2012 | Food and Chemical Toxicology2012，50，6： | 1 |
| 7 | Salt and pH-dependent properties of native and mutant insulin显示文摘A fast and effective model for predicting the salt and pH dependent properties of protein complexes is presented. It is based on the formal charge parameter sets of ionizable groups and applied in conjunction with the finite difference Poisson-Boltzmann (FDPB) method to calculate the electrostatic interactions. All simulations were performed on the native 2Zn insulin and its fast-acting mutants such as B9D (B9Ser→Asp), B9E (B9Aer→Glu), B9EB10D (B9Ser→ Glu, B10His→Asp), and B10D (B10His→Asp). The salt and pH dependent properties of these dimers were analyzed from the aspect of electrostatic interaction, and the theoretical basis of the fast-acting behavior of these mutants was explained. It is found that the results agree well with experimental observations. | MA Xiaohui LI Chunhua LU Benzhuo CHEN Weizu WANG Cunxin XU Xiaojie | 2002 | Chinese Science Bulletin2002，47，6： | 0 |
您所在的机构暂未开通此部分的功能，请联系管理员