OCLSTM: Optimized convolutional and long short-term memory neural network model for protein secondary structure prediction

Abstract

Protein secondary structure prediction is extremely important for determining the spatial structure and function of proteins. In this paper, we apply an optimized convolutional neural network and long short-term memory neural network models to protein secondary structure prediction, which is called OCLSTM. We use an optimized convolutional neural network to extract local features between amino acid residues. Then use the bidirectional long short-term memory neural network to extract the remote interactions between the internal residues of the protein sequence to predict the protein structure. Experiments are performed on CASP10, CASP11, CASP12, CB513, and 25PDB datasets, and the good performance of 84.68%, 82.36%, 82.91%, 84.21% and 85.08% is achieved respectively. Experimental results show that the model can achieve better results.