The proteins in the NuclearDB are collected by mining NCBI's NR database for Nuclear Hormone Receptors. We use hidden Markov models (HMMs) to classify the proteins.
The alignments in the NuclearDB are created by using position-specific profiles. The use of such profiles allows for high-quality alignments. For each protein family the protein sequences of the classified proteins are aligned by the WhatIf software package as described in
The NuclearDB currently contains:
You can download the protein family members and class descriptions: