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题名: Geometric and statistical properties of the mean-field hydrophobic-polar model, the large-small model, and real protein sequences
作者: Shih, CT ;  Su, ZY ;  Gwan, JF ;  Hao, BL ;  Hsieh, CH ;  Lo, JL ;  Lee, HC
刊名: PHYSICAL REVIEW E
出版日期: 2002
卷号: 65, 期号:4, 页码:-
关键词: GLOBULAR-PROTEINS ;  AQUEOUS-SOLUTION ;  FOLDING FUNNELS ;  AMINO-ACIDS ;  DESIGNABILITY ;  TRANSITION ;  STABILITY ;  POLYMERS ;  PEPTIDE ;  DESIGN
学科分类: Physics
通讯作者: Shih, CT , Natl Ctr High Performance Comp, Hsinchu, Taiwan.
部门归属: Natl Ctr High Performance Comp, Hsinchu, Taiwan; Forschungszentrum Julich, Forum Modellierung, D-52425 Julich, Germany; Acad Sinica, Inst Theoret Phys, Beijing 100080, Peoples R China; Natl Cent Univ, Dept Phys, Chungli 32054, Taiwan; Natl Cent Univ, Dept Life Sci, Chungli 32054, Taiwan; Stanford Univ, Dept Phys, Stanford, CA 94305 USA; Tunghai Univ, Dept Phys, Taichung 40704, Taiwan
英文摘要: Lattice models, for their coarse-grained nature, are best suited for the study of the "designability problem," the phenomenon in which most of the about 16 000 proteins of known structure have their native conformations concentrated in a relatively small number of about 500 topological classes of conformations. Here it is shown that on a lattice the most highly designable simulated protein structures are those that have the largest number of surface-core switchbacks. A combination of physical, mathematical, and biological reasons that causes the phenomenon is given. By comparing the most foldable model peptides with protein sequences in the Protein Data Bank, it is shown that whereas different models may yield similar designabilities, predicted foldable peptides will simulate natural proteins only when the model incorporates the correct physics and biology, in this case if the main folding force arises from the differing hydrophobicity of the residues, but does not originate, say, from the steric hindrance effect caused by the differing sizes of the residues.
收录类别: SCI
原文出处: 查看原文
WOS记录号: WOS:000175146400097
Citation statistics: 
内容类型: 期刊论文
URI标识: http://ir.itp.ac.cn/handle/311006/13562
Appears in Collections:理论物理所1978-2010年知识产出_期刊论文

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Recommended Citation:
Shih, CT,Su, ZY,Gwan, JF,et al. Geometric and statistical properties of the mean-field hydrophobic-polar model, the large-small model, and real protein sequences[J]. PHYSICAL REVIEW E,2002,65(4):-.
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