PMID: 9443960Mar 14, 1998Paper

The role of zinc finger linkers in p43 and TFIIIA binding to 5S rRNA and DNA

Nucleic Acids Research
R F Ryan, M K Darby

Abstract

Transcription factor IIIA (TFIIIA) and p43 zinc finger protein form distinct complexes with 5S ribosomal RNA in Xenopus oocytes. Additionally, TFIIIA binds the internal promoter of the 5S RNA gene and supports assembly of a transcription initiation complex. Both proteins have nine tandemly repeated zinc fingers with almost identical linker lengths between corresponding fingers, yet p43 has no detectable affinity for the 5S RNA gene. TFIIIA zinc fingers 1-3 are connected by highly conserved linkers, first identified in the Drosophila protein Krüppel, that are found in many DNA binding zinc finger proteins. To understand the role of these linkers in RNA and DNA binding we exchanged three TFIIIA linker amino acids with the equivalent amino acids from p43. The major effect of linker substitution is a 50-fold reduction in DNA specificity, concomitant with an 8-fold reduction in affinity. N-Terminal zinc fingers from either TFIIIA or p43 bind to multiple specific sites on 5S RNA that are resistant to competition by tRNA or poly(rA). This mode of RNA binding is unaffected by linker substitution. These data suggest that zinc finger linkers significantly facilitate the specificity of DNA binding.

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Citations

Feb 21, 2008·Cell Biochemistry and Biophysics·Kathryn J BrayerDavid J Segal
Feb 7, 2008·Cell Biochemistry and Biophysics·Kathryn J Brayer, David J Segal
Feb 19, 2000·Current Opinion in Chemical Biology·D J Segal, C F Barbas
May 7, 2004·Proceedings of the National Academy of Sciences of the United States of America·Derek Jantz, Jeremy M Berg
Dec 14, 2002·Biochemical and Biophysical Research Communications·Wataru NomuraYukio Sugiura
Jan 27, 1999·Biochemical and Biophysical Research Communications·N CorbiC Passananti
Aug 15, 2000·Annual Review of Biophysics and Biomolecular Structure·S A WolfeC O Pabo
Oct 16, 2013·Journal of Biomolecular Structure & Dynamics·Patricia EsperónMargot Paulino
Jan 8, 1999·Journal of Molecular Biology·M J BumbulisD R Setzer
Jun 23, 2019·Genome Biology and Evolution·Álvaro Perdomo-Sabogal, Katja Nowick
Feb 24, 2010·Biochemistry·Tristen C WeissPaul J Romaniuk
Jun 28, 2014·G3 : Genes - Genomes - Genetics·Sarah H LockwoodDavid J Segal
Aug 6, 2021·Journal of Computer-aided Molecular Design·Mazen Y HamedRoza Zaid

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