Combined bioRxivManuscript preprint File doi: https://doi.org/10.1101/188680; this version posted September 14, 2017. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Allosteric effector ppGpp potentiates the inhibition of transcript initiation by DksA Vadim Molordtsov1, Elena Sineva1, Lu Zhang2, Xuhui Huang3, Michael Cashel4, Sarah E. Ades1,5, Katsuhiko S. Murakami1,5,6 1Department of Biochemistry and Molecular Biology, The Center for RNA Molecular Biology, The Pennsylvania State University, University Park, PA 16802, USA 2State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou, Fujian, 350002, China 3Department of Chemistry, The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong 4Intramural Research Program, Eunice Kennedy Shriver, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA 5Correspondence:
[email protected],
[email protected] 6Lead contact:
[email protected] Highlights DksA has two modes of binding to RNA polymerase DksA is capable of inhibiting the catalysis and influences the DNA binding of RNAP ppGpp acts as an allosteric effector of DksA function ppGpp stabilizes DksA in a more functionally important binding mode 1 bioRxiv preprint doi: https://doi.org/10.1101/188680; this version posted September 14, 2017. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. SUMMARY DksA and ppGpp are the central players in the Escherichia coli stringent response and mediate a complete reprogramming of the transcriptome from one optimized for rapid growth to one adapted for survival during nutrient limitation.