Skip to main content
RNABindR: a server for analyzing and predicting RNA-binding sites in proteins
Nucleic Acids Research
  • Michael Terribilini, Iowa State University
  • Jeffry D. Sander, Iowa State University
  • Jae-Hyung Lee, Iowa State University
  • Peter Zaback, Iowa State University
  • Robert L. Jernigan, Iowa State University
  • Vasant Honavar, Iowa State University
  • Drena Dobbs, Iowa State University
Document Type
Publication Version
Published Version
Publication Date

Understanding interactions between proteins and RNA is key to deciphering the mechanisms of many important biological processes. Here we describe RNABindR, a web-based server that identifies and displays RNA-binding residues in known protein–RNA complexes and predicts RNA-binding residues in proteins of unknown structure. RNABindR uses a distance cutoff to identify which amino acids contact RNA in solved complex structures (from the Protein Data Bank) and provides a labeled amino acid sequence and a Jmol graphical viewer in which RNA-binding residues are displayed in the context of the three-dimensional structure. Alternatively, RNABindR can use a Naive Bayes classifier trained on a non-redundant set of protein–RNA complexes from the PDB to predict which amino acids in a protein sequence of unknown structure are most likely to bind RNA. RNABindR automatically displays ‘high specificity’ and ‘high sensitivity’ predictions of RNA-binding residues. RNABindR is freely available at


This article is from Nucleic Acids Research 35 (2007): W578, doi: 10.1093/nar/gkm294. Posted with permission.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License ( which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
Copyright Owner
The Authors
File Format
Citation Information
Michael Terribilini, Jeffry D. Sander, Jae-Hyung Lee, Peter Zaback, et al.. "RNABindR: a server for analyzing and predicting RNA-binding sites in proteins" Nucleic Acids Research Vol. 35 (2007) p. W578 - W584
Available at: