E-MTAB-1626 - ChIP-chip by array of budding yeast with anti-Rpb3 antibody to study how an altered RNA polymerase II (Pol II) C-terminal domain (CTD)-binding domain in Nrd1 contributes to the choice of Pol II termination pathway
Last updated on 3 December 2013, released on 4 December 2013
The RNA polymerase II (RNApII) C-terminal domain (CTD)-interacting domain (CID) proteins are involved in two distinct termination pathways and recognize different phosphorylated forms of CTD. To investigate the role of differential CTD–CID interactions in the choice of termination pathway, we altered the CTD-binding specificity of Nrd1 by domain swapping. ChIP-chip was performed to examine the effect of Nrd1 CID swapping on genome-wide RNA polymerase II (Rpb3 antibody, Neoclone) occupancy. Nrd1 with the CID from Rtt103 (Nrd1[CID-Rtt103]; strain YSB2445) causes read-through transcription at many genes, but can trigger termination where multiple Nrd1/Nab3-binding sites and serine 2 phosphorylated CTD co-exist.
ChIP-chip by array, binding site identification, cellular process design, in vivo design
The Nrd1 CTD-interaction domain contributes to the choice of RNA polymerase II termination pathway and couples to RNA processing by the nuclear exosome.