A simple C-alpha-SC potential with higher accuracy for protein fold recognition
文献类型：期刊论文
| 作者 | Go, Junfeng3; Li, Honglin1,2; Jiang, Hualiang1,2 ; Wang, Xicheng3
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| 刊名 | BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
 |
| 出版日期 | 2009-02-06 |
| 卷号 | 379期号:2页码:610-615 |
| 关键词 | Protein folding Potential function Hydrophobic effect Short-range interactions Contact potential |
| ISSN号 | 0006-291X |
| DOI | 10.1016/j.bbrc.2008.12.131 |
| 文献子类 | Article |
| 英文摘要 | In this paper, an improved C alpha-SC energy potential designed for protein fold recognition was reported. It consists of three extremely simple interaction terms which are supposed to be the dominant interactions in protein folding: residue-residue contact, hydrophobicity and pseudodihedral potentials. The potential function only contains 210 contacts, one hydrophobic and one torsion parameters, which have been optimized using an interior point algorithm of linear programming. Tests of the derived potential function on commonly used decoy sets illustrate that it outperforms most of the existing coarse-grained potentials in terms of its capabilities in recognizing native structures and consistency in achieving high Z-scores across decoy sets, and it has almost equivalent performance to the potentials which considered complex intramolecular interactions. The results show that our scoring function is a generally prospective potential for protein structure prediction and modeling with regard to its recognition and computation efficacy. (C) 2008 Elsevier Inc. All rights reserved |
| WOS关键词 | GAS REFERENCE STATE ; SIDE-CHAIN PACKING ; MEAN FORCE ; STATISTICAL POTENTIALS ; STRUCTURE SELECTION ; RESIDUE POTENTIALS ; ENERGY FUNCTIONS ; PAIR POTENTIALS ; LATTICE MODEL ; PREDICTION |
| 资助项目 | National Natural Science Foundation[10572033] ; National Natural Science Foundation[10772042] ; National Natural Science Foundation[30672539] ; National Natural Science Foundation[20721003] ; Special Funds for Major State Basic Research Project[2004CB518901] ; Special Funds for Major State Basic Research Project[2009CB918501] ; High Science and Technology of China[2006AA01A124] ; High Science and Technology of China[2007AA02Z304] |
| WOS研究方向 | Biochemistry & Molecular Biology ; Biophysics |
| 语种 | 英语 |
| WOS记录号 | WOS:000262924300085 |
| 出版者 | ACADEMIC PRESS INC ELSEVIER SCIENCE |
| 源URL | [http://119.78.100.183/handle/2S10ELR8/279318]  |
| 专题 | 药物发现与设计中心 中科院受体结构与功能重点实验室 新药研究国家重点实验室 |
| 通讯作者 | Jiang, Hualiang |
| 作者单位 | 1.Chinese Acad Sci, Shanghai Inst Mat Med, State Key Lab Drug Res, Drug Discovery & Design Ctr, Shanghai 201203, Peoples R China; 2.E China Univ Sci & Technol, Sch Pharm, Shanghai 200237, Peoples R China 3.Dalian Univ Technol, Dept Engn Mech, State Key Lab Struct Anal Ind Equipment, Dalian 116024, Peoples R China; |
| 推荐引用方式 GB/T 7714 | Go, Junfeng,Li, Honglin,Jiang, Hualiang,et al. A simple C-alpha-SC potential with higher accuracy for protein fold recognition[J]. BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS,2009,379(2):610-615. |
| APA | Go, Junfeng,Li, Honglin,Jiang, Hualiang,&Wang, Xicheng.(2009).A simple C-alpha-SC potential with higher accuracy for protein fold recognition.BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS,379(2),610-615. |
| MLA | Go, Junfeng,et al."A simple C-alpha-SC potential with higher accuracy for protein fold recognition".BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS 379.2(2009):610-615. |
入库方式： OAI收割
来源：上海药物研究所
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