The Old and New Testaments of gene regulation. Evolution of multi-subunit RNA polymerases and co-evolution of eukaryote complexity with the RNAP II CTD

Transcription
Zachary F Burton

Abstract

I relate a story of genesis told from the point of view of multi-subunit RNA polymerases (RNAPs) including an Old Testament (core RNAP motifs in all cellular life) and a New Testament (the RNAP II heptad repeat carboxy terminal domain (CTD) and CTD interactome in eukarya). The Old Testament: at their active site, one class of eukaryotic interfering RNAP and ubiquitous multi-subunit RNAPs each have two-double psi β barrel (DPBB) motifs (a distinct pattern for compact 6-β sheet barrels). Between β sheets 2 and 3 of the β subunit type DPBB of all multi-subunit RNAPs is a sandwich barrel hybrid motif (SBHM) that interacts with conserved initiation and elongation factors required to utilize a DNA template. Analysis of RNAP core protein motifs, therefore, indicates that RNAP evolution can be traced from the RNA-protein world to LUCA (the last universal common ancestor) branching to LECA (the last eukaryotic common ancestor) and to the present day, spanning about 4 billion years. The New Testament: in the eukaryotic lineage, I posit that splitting RNAP functions into RNAPs I, II and III and innovations developed around the CTD heptad repeat of RNAP II and the extensive CTD interactome helps to describe how greater structural, cell cyc...Continue Reading

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Citations

Mar 2, 2016·Journal of Computational Chemistry·Kristopher OpronGuo-Wei Wei
Dec 9, 2014·Transcription·Samuel P Burton, Zachary F Burton
Sep 17, 2016·Transcription·Robert Root-BernsteinZachary F Burton
Aug 31, 2017·Transcription·Yuri A NedialkovZachary F Burton
Apr 27, 2019·Frontiers in Genetics·Heeralal JanwaBud Mishra
Nov 11, 2020·The Journal of Biological Chemistry·Ruth Q JacobsDavid A Schneider
Jan 8, 2021·The Journal of Biological Chemistry·Ruth Q JacobsDavid A Schneider
May 11, 2021·Frontiers in Molecular Biosciences·Marina Barba-AliagaJosé E Pérez-Ortín
May 19, 2021·Transcription·Lei Lei, Zachary Frome Burton
May 25, 2021·Frontiers in Molecular Biosciences·Lei Lei, Zachary F Burton
Sep 25, 2021·Journal of the American Chemical Society·Sota YagiShunsuke Tagami

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Methods Mentioned

BETA
GTPase
dissection

Software Mentioned

Visual Molecular Dynamics
LUCA

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