Protein Folding Study Based on The HNP Model and The Relative Entropy Approach
- VernacularTitle:基于HNP三态模型及相对熵方法的蛋白质折叠研究
- Author:
Jiguo SU
;
Baohan WANG
;
Xiong JIAO
;
Weizu CHEN
;
Cunxin WANG
- Publication Type:Journal Article
- Keywords:
simplified amino acid model, relative entropy, protein folding
- From:
Progress in Biochemistry and Biophysics
2006;0(05):-
- CountryChina
- Language:Chinese
-
Abstract:
Twenty kinds of amino acids are simplified into 3 types: hydrophobic amino acids (H), hydrophilic amino acids (P) and neutral amino acids (N). Each residue is reduced to a bead which locates in the position of the C?琢 atom. The off-lattice model is adopted and the relative entropy is used as a minimization function to predict the tertiary structure of a protein. A new contact intensity function is given to consist with protein design research based on the relative entropy. Testing on several real proteins from Protein Data Bank (PDB) shows the good results obtained with the model and method. The root mean square deviations (RMSD) of the predicted structures relative to the native structures range from 0.30 to 0.70 nm. A foundation for studying protein design using the HNP model and the relative entropy was made.
