BindN+ for sequence-based prediction of DNA and RNA-binding residues
BindN+, an upgraded version of BindN, applies support vector machines (SVMs) to sequence-based prediction of DNA or RNA-binding residues from biochemical features and evolutionary information.  The SVM classifiers have been constructed using two curated datasets (PDNA-62 and PRINR25) from the Protein Data Bank.  For a query sequence, the BindN+ system performs a three-iteration PSI-BLAST search against the UniProtKB database to derive evolutionary information.  Because of the PSI-BLAST search, BindN+ runs more slowly than BindN.  Please be patient.

For DNA-binding residues, the prediction accuracy estimated from cross-validation is about 79% with equal sensitivity and specificity.  For RNA-binding residues, the estimated accuracy is over 75%.  The performance of BindN+ has further been verified using two separate test datasets (TestPDB and TestSP).  Please send your comments or suggestions to


Paste your amino acid sequence in FASTA format: 

Predict    binding residues with expected    equal to  %



2011 Clemson University Department of Genetics and Biochemistry and Greenwood Genetic Center.