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A study of the component synthesis method (CSM) for analyzing the normal mode dynamics of macromolecules is reported. The procedure involves a reduction of the dimensions of the normal mode problems for large molecular systems and the accurate extraction of the low-frequency modes. A macromolecule is divided into small components based on a hierarchical clustering of the residues in the structure. Interactions between coupled components are treated by the method of static correlation. The normal modes of the components are obtained first, and a fraction of the low-frequency normal modes of the components under mutual correlations are then used as a reduced basis for solving for the normal modes of the whole molecule. Multiple components are introduced for large macromolecules so that the dimensions of the eigenvalue problems at the component level are small. The method is applied to the protein crambin. In test calculations in which the dimensions of the eigenvalue equations are reduced to 1/6 of their natural size, the errors in the normal mode frequencies calculated by the CSM procedure are only about 1–2% when compared with the exact values. The rms fluctuations of all atoms in crambin calculated by the CSM procedure are basically identical to the exact results. The CSM procedure is shown to be accurate for calculating the normal modes of large macromolecules with a significant reduction of the size of the problem. © 1994 John Wiley & Sons, Inc. 相似文献
3.
The FER gene is evolutionarily conserved and encodes a widely expressed member of the FPS/FES protein-tyrosine kinase family. 总被引:4,自引:3,他引:1 下载免费PDF全文
T Pawson K Letwin T Lee Q L Hao N Heisterkamp J Groffen 《Molecular and cellular biology》1989,9(12):5722-5725
We have recently isolated human and rat cDNAs (designated FER and flk, respectively) which encode nonreceptor protein-tyrosine kinases which are very similar to one another and related in sequence and domain structure to the c-fps/fes gene product. We show that FER and flk are human and rat counterparts of an evolutionarily conserved gene, hereafter termed FER regardless of species. The human and rat FER genes encode a widely expressed 94-kilodalton protein-tyrosine kinase which is antigenically related to the fps/fes protein-tyrosine kinase. The structural and antigenic similarities between the FER and fps/fes proteins suggest that they are members of a new family of nonreceptor protein-tyrosine kinases. 相似文献
4.
A. Jun-Wei Wong 《Biological cybernetics》1988,58(6):361-372
The Hopfield model of neural network stores memory in its symmetric synaptic connections and can only learn to recognize sets of nearly orthogonal patterns. A new algorithm is put forth to permit the recognition of general (non-orthogonal) patterns. The algorithm specifies the construction of the new network's memory matrix T
ij, which is, in general, asymmetrical and contains the Hopfield neural network (Hopfield 1982) as a special case. We find further that in addition to this new algorithm for general pattern recognition, there exists in fact a large class of T
ij memory matrices which permit the recognition of non-orthogonal patterns. The general form of this class of T
ij memory matrix is presented, and the projection matrix neural network (Personnaz et al. 1985) is found as a special case of this general form. This general form of memory matrix extends the library of memory matrices which allow a neural network to recognize non-orthogonal patterns. A neural network which followed this general form of memory matrix was modeled on a computer and successfully recognized a set of non-orthogonal patterns. The new network also showed a tolerance for altered and incomplete data. Through this new method, general patterns may be taught to the neural network. 相似文献
5.
Raw leachate was treated using a two-stage upflow anaerobic filter process. Leachate from a solid waste landfill site, which received both municipal and industrial wastes, contained high organic matter (17-21 g/L COD, 13-14 g/L BOD, and 3.5-4.6 g/L volatile acids), and low metal (Zn and Fe) concentrations. Depending on sampling time, leachate composition and characteristics varied considerably. At an organic loading up to 4 g COD/day(2) media area, the BOD and COD removal percentages were 98 and 91%, respectively. The biofilters were also effective for metal removal. However, the filter effluent contained a high concentration of ammonia. System overloading was characterized by the accumulation of large quantities of volatile acids and by a now ratio of alkalinity/volatile acids, resulting in low COD removal and reduced gas production. Once the first filter was upset, the second stage could only partially respond to the volatile acids accumulated in the effluent of first filter. 相似文献
6.
Introduction 总被引:1,自引:0,他引:1
7.
在细叶黄芪叶肉原生质体发育早期,细胞器的变化较大。离体培养4h后,线粒体的嵴和基质物质开始增加。培养3—5天后,线粒体的数量增加5倍以上,此时可见大部分线粒体围绕细胞核分布。在培养24h后,高尔基体开始发育,它们主要分布在细胞质周边区域。多糖细胞化学染色表明,高尔基体内沉积着大量嗜银物质。培养1天后,粗面内质网开始发育。培养3天时,部分叶绿体边缘出现一些空隙结构。随着叶绿体内膜结构的消失,淀粉粒增大,叶绿体逐渐转变为造粉质体。 相似文献
8.
津白_3侏儒小鼠(dW~t)是1982年从津白_3纯系小鼠(TA_3)中发现,进而培育成侏的变种。本实验应用免疫细胞化学技术,对dw ̄t小鼠垂体前叶生长激素(GH)细胞进行观察,并根据体视学原理进行定量分析,以探讨dw~t小鼠是否存在垂体发育缺陷。实验结果显示,dw~t小鼠GH细胞的体积密度(Vv)和数密度(Nv)值均低于正常对照组,P<0.01~0.001。表明dw~t小鼠由于垂体前叶GH细胞数量减少,导致GH分泌不足,从而形成侏儒。 相似文献
9.
10.
Huiling Hao Yunquan Jiang S. J. Zhang Peng Zhang Rong X. Zeng Marietta Y. W. T. Lee 《Chromosoma》1992,102(Z1):S121-S127
A continuing theme of our laboraory, has been the understanding of human DNA polymerases at the structural level. We have
purified DNA polymerases delta, epsilon and alpha from human placenta. Monoclonal antibodies to these polymerases were isolated
and used as tools to study their immunochemical relationships. These studies have shown that while DNA polymerases delta,
epsilon and alpha are discrete protiens, they must share common structural features by virtue of the ability of several of
our monoclonal antibodies to exhibit cross-reactivity. A second approach we have taken is the molecular cloning of human DNA
polymerase delta and epsilon. We have cloned the DNA polymerase delta cDNA, and this has allowed us to compare its primary
structure to those of human polymerase alpha and other members of this polymerase family. Multiple sequence alignments have
revealed that human DNA polymerase delta is also closely related to the herpes virus family of DNA polymerases. In situ hybridization
has shown that the human DNA polymerase delta gene is localized to chromosome 19 q13.3–q13.4. In order to further determine
the functional regions of the DNA polymerase δ structure we are currently expressing human pol δ inE. coli and baculovirus systems. Other work in our laboratory is directed toward examining the expression of DNA polymerase δ during
the cell cycle. 相似文献