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Updated: Jul 7, 2026

Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins
Published on: July 8, 2025
[Relationships of nucleotide, amino acid sequence and secondary structure of protein and molecular design]
1Life College of Science and Engineering, Shaanxi University of Science & Technology, Xianyang, 712081, China. mapeng_true@yahoo.com.cn
Abstract:
May the structure information of protein be obtained from the corresponding nucleotide sequence? For this question, a computer program was used to conduct a statistical analysis about the clustering phenomena of amino acids. In this method, 20 kinds of amino acid were classified into 2 types according to the number of hydrogen bonds formed by middle base of their correlation codons. It can be seen that amino acid has a rather great possibility of neighboring on another of its class and this assembly has a tendency to forming specific secondary structure. A sequence was designed and its secondary structure was predicted by this prediction software.
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