NTP-driven translocation and regulation of downstream template opening by multi-subunit RNA polymerases

Biochem Cell Biol. 2005 Aug;83(4):486-96. doi: 10.1139/o05-059.

Abstract

Multi-subunit RNA polymerases bind nucleotide triphosphate (NTP) substrates in the pretranslocated state and carry the dNMP-NTP base pair into the active site for phosphoryl transfer. NTP-driven translocation requires that NTP substrates enter the main-enzyme channel before loading into the active site. Based on this model, a new view of fidelity and efficiency of RNA synthesis is proposed. The model predicts that, during processive elongation, NTP-driven translocation is coupled to a protein conformational change that allows pyrophosphate release: coupling the end of one bond-addition cycle to substrate loading and translocation for the next. We present a detailed model of the RNA polymerase II elongation complex based on 2 low-affinity NTP binding sites located in the main-enzyme channel. This model posits that NTP substrates, elongation factors, and the conserved Rpb2 subunit fork loop 2 cooperate to regulate opening of the downstream transcription bubble.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, P.H.S.
  • Review

MeSH terms

  • Humans
  • Models, Molecular
  • Nucleotides / metabolism*
  • Protein Conformation
  • Protein Transport
  • RNA Polymerase II / physiology*
  • Transcriptional Elongation Factors / metabolism*

Substances

  • Nucleotides
  • Transcriptional Elongation Factors
  • RNA Polymerase II