RNAsite

RNAsite predicts small molecule–RNA binding sites using structure-based and sequence profile–based models.

Key Features:

• Structure-Based Prediction (RNAsite_str): Utilizes experimentally derived RNA structural features to model small molecule–RNA interaction preferences and achieve high-accuracy binding site prediction when 3D structures are available.
• Sequence Profile-Based Prediction (RNAsite_seq): Applies sequence profile features to predict binding sites in the absence of structural data, enabling structure-independent analysis.

Scientific Applications:

• RNA-Targeted Drug Discovery: Identifies potential small molecule binding sites within RNA molecules to support therapeutic target selection and validation.

Methodology:

RNAsite integrates structure-derived interaction features and sequence profile information into complementary predictive models, combining outputs to improve binding site prediction accuracy across datasets with experimental or modeled RNA structures.