Login In
Citation:
Lai Lu-Hua, Wang Le-Yu, Deng Qiao-Lin, Han Yu-Zhen, Ma Li-Bin, Xu Xiao-Jie, Tang You-Qi. Constraint Monte-Carlo Simulated Annealing:Application in Peptide Conformational Analysis in Solution[J]. Acta Physico-Chimica Sinica,
;1994, 10(10): 867-869.
doi:
10.3866/PKU.WHXB19941001
-
Distance geometry and molecular dynamics are currently employed in determining molecular structures with interatomic distances from NMR NOESY experiment. Because of the flexibility of peptide, distances obtained from NMR are usually not sufficient to confine its structure. Both distance geometry and molecular dynamics will bias in the conformational space at this circumstance. Constraint Monte Carlo simulated annealing was established to solve this problem. Distance constraints were included into the ECEPP/2 force field by introducing a harmonic energy term. Conformational analysis of a pentapeptide with eight interatomic distances from NMR was carried out as a test. By comparison of the 100 conformers obtained from constraint simulated annealing and the 100 conformers from distance geometry calculation, it was found that constraint simulated annealing can cover the outcomes of distance geometry and at the same time give more con-formers fitting to the experimental data. The result shows that constraint Monte-Carlo simulated annealing is more valid in constructing peptide structures from NMR distances than currently employed methods when no sufficient distances from NMR are available.
-
Keywords:
-
Simulated annealing
, - Conformation,
- Peptide
-
-
-
-
-
[1]
Jiaxi Xu , Yuan Ma . Influence of Hyperconjugation on the Stability and Stable Conformation of Ethane, Hydrazine, and Hydrogen Peroxide. University Chemistry, 2024, 39(11): 374-377. doi: 10.3866/PKU.DXHX202402049
-
[2]
Pingping Zhu , Yongjun Xie , Yuanping Yi , Yu Huang , Qiang Zhou , Shiyan Xiao , Haiyang Yang , Pingsheng He . Excavation and Extraction of Ideological and Political Elements for the Virtual Simulation Experiments at Molecular Level: Taking the Project “the Simulation and Computation of Conformation, Morphology and Dimensions of Polymer Chains” as an Example. University Chemistry, 2024, 39(2): 83-88. doi: 10.3866/PKU.DXHX202309063
-
[3]
Xiaochen Zhang , Fei Yu , Jie Ma . 多角度数理模拟在电容去离子中的前沿应用. Acta Physico-Chimica Sinica, 2024, 40(11): 2311026-. doi: 10.3866/PKU.WHXB202311026
-
[4]
Congying Lu , Fei Zhong , Zhenyu Yuan , Shuaibing Li , Jiayao Li , Jiewen Liu , Xianyang Hu , Liqun Sun , Rui Li , Meijuan Hu . Experimental Improvement of Surfactant Interface Chemistry: An Integrated Design for the Fusion of Experiment and Simulation. University Chemistry, 2024, 39(3): 283-293. doi: 10.3866/PKU.DXHX202308097
-
[5]
Donghui PAN , Yuping XU , Xinyu WANG , Lizhen WANG , Junjie YAN , Dongjian SHI , Min YANG , Mingqing CHEN . Preparation and in vivo tracing of 68Ga-labeled PM2.5 mimetic particles for positron emission tomography imaging. Chinese Journal of Inorganic Chemistry, 2024, 40(4): 669-676. doi: 10.11862/CJIC.20230468
-
[1]
Metrics
- PDF Downloads(2210)
- Abstract views(3265)
- HTML views(118)
DownLoad: