Toward an accurate prediction of inter-residue distances in proteins using 2D recursive neural networks.

ABSTRACT:

Background

Protein inter-residue contact maps provide a translation and rotation invariant topological representation of a protein. They can be used as an intermediary step in protein structure predictions. However, the prediction of contact maps represents an unbalanced problem as far fewer examples of contacts than non-contacts exist in a protein structure.In this study we explore the possibility of completely eliminating the unbalanced nature of the contact map prediction problem by predicting real-value distances between residues. Predicting full inter-residue distance maps and applying them in protein structure predictions has been relatively unexplored in the past.

Results

We initially demonstrate that the use of native-like distance maps is able to reproduce 3D struct

SUBMITTER: Kukic P 

PROVIDER: S-EPMC3893389 | biostudies-literature | 2014 Jan

REPOSITORIES: biostudies-literature