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Updated: Aug 23, 2026

A Protocol for Computer-Based Protein Structure and Function Prediction
Published on: November 3, 2011
Prediction of protein secondary structure based on residue pairs
Xin Liu1, Li-Mei Zhang, Wei-Mou Zheng
1Interdisciplinary Center of Theoretical Studies, Chinese Academy of Sciences, Beijing 100080, China.
Abstract:
The GOR program for predicting protein secondary structure is extended to include triple correlation. A score system for a residue pair to be at certain conformation state is derived from the conditional weight matrix describing amino acid frequencies at each position of a window flanking the pair under the condition for the pair to be at the fixed state. A program using this score system to predict protein secondary structure is established. After training the model with a learning set created from PDB_SELECT, the program is tested with two test sets. As a method using single sequence for predicting secondary structures, the approach achieves a high accuracy near 70%.
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