Modular recognition of RNA by a human pumilio-homology domain

Cell. 2002 Aug 23;110(4):501-12. doi: 10.1016/s0092-8674(02)00873-5.


Puf proteins are developmental regulators that control mRNA stability and translation by binding sequences in the 3' untranslated regions of their target mRNAs. We have determined the structure of the RNA binding domain of the human Puf protein, Pumilio1, bound to a high-affinity RNA ligand. The RNA binds the concave surface of the molecule, where each of the protein's eight repeats makes contacts with a different RNA base via three amino acid side chains at conserved positions. We have mutated these three side chains in one repeat, thereby altering the sequence specificity of Pumilio1. Thus, the high affinity and specificity of the PUM-HD for RNA is achieved using multiple copies of a simple repeated motif.

MeSH terms

  • Binding Sites / genetics
  • Drosophila Proteins / genetics
  • Drosophila Proteins / metabolism
  • Eukaryotic Cells / cytology
  • Eukaryotic Cells / metabolism*
  • Humans
  • Models, Biological
  • Molecular Sequence Data
  • Protein Binding / genetics
  • Protein Structure, Tertiary / genetics
  • RNA, Messenger / genetics
  • RNA, Messenger / metabolism*
  • RNA-Binding Proteins / analysis*
  • RNA-Binding Proteins / genetics
  • RNA-Binding Proteins / metabolism
  • Sequence Homology, Amino Acid
  • Sequence Homology, Nucleic Acid
  • Transcription Factors / analysis*
  • Transcription Factors / genetics
  • Xenopus Proteins*


  • Drosophila Proteins
  • PUM1 protein, Xenopus
  • Pum2 protein, mouse
  • RNA, Messenger
  • RNA-Binding Proteins
  • Transcription Factors
  • Xenopus Proteins
  • pum protein, Drosophila
  • pumilio protein, human