Lecture 12 RNA polymerase as a molecular motor

Lecture 12 RNA polymerase as a molecular motor Transcriptional control

RNA polymerase as a molecular motor from Gelles 1998

From S. Block

Average step size = 3. 7 A, which corresponds to the base spacing in BDNA

RNAP can back-step!

Transcriptional control (Chapter 7)

DNA –> transcription –> RNA –> translation -> Protein The complexity and diversity of today’s forms of life are primarily due to two relatively simple types of physico-chemical phenomena: 1. Cooperative binding 2. Steric hindrance

In bacteria: Even though lactose, arabinose and other sugars may be available for the cell, in the presence of glucose the production of enzymes metabolizing sugars other than glucose is repressed. This is known as catabolite repression. lac operon contains 3 genes necessary for consumption of galactose: (1) b-galactosidase, (2) galactoside permease and (3) thiogalactoside transacetylase There are positive and negative regulatory elements that make catabolite repression work. c. AMP receptor protein (CAP), acting as a homodimer can bind both c. AMP and DNA. When glucose is absent (high c. AMP state), CAP binds to its positive regulatory element increasing transcription of the lac operon 50 -fold. Lac repressor is a tetrameric complex that in the absence of lactose binds tightly to the operator region covering the transcription initiation site. In the presence of lactose or lactose mimicking substances (IPTG) it falls off.

The Lac Operon High level of transcription takes place when glucose is low and lactose is high. Without bound activator (CAPc. AMP) the lac promoter is poorly transcribed even when lactose concentrations are high and the Lac repressor is unbound (read section 7. 1 for more information on prokaryotic gene control)

Pax 6 is a transcription factor responsible for development of several tissues. It utilizes 3 different promoters at distinct times during embryogenesis.

Leucine Zipper and basic Helix-Loop-Helix proteins

Ligand binding changes conformation of the estrogen receptor

Cooperative binding of two unrelated transcription factors to a composite control element