ArticleMolecular cell2013
The mechanism of E. coli RNA polymerase regulation by ppGpp is suggested by the structure of their complex.
Article in Molecular cell, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 123 papers.
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Who cites it
123 citing papers in PubMed.
- ppGpp regulates transcription elongation via direct and indirect inputs to RNA polymerase pausing and nucleotide addition.bioRxiv : the preprint server for biology · 2026Article
- Suppressor analysis inFrontiers in microbiology · 2026Article
- Functional interplay between (p)ppGpp and RNAP in Acinetobacter baumannii.PLoS pathogens · 2025Article
- Antibiotic Persister Cells in Acinetobacter baumannii: Overview of Molecular Mechanisms and Removal Strategies.Environmental microbiology · 2025Review
- EPS inhibitor treatment of Salmonella impacts evolution without selecting for resistance to biofilm inhibition.NPJ biofilms and microbiomes · 2025Article
- Article
- Clues to transcription/replication collision-induced DNA damage: it was RNAP, in the chromosome, with the fork.FEBS letters · 2025Review
- Inorganic polyphosphate and the stringent response coordinately control cell division and cell morphology inbioRxiv : the preprint server for biology · 2024Article
- Control of transcription elongation and DNA repair by alarmone ppGpp.Nature structural & molecular biology · 2023Article
- Protein-Ligand Interactions in Scarcity: The Stringent Response from Bacteria to Metazoa, and the Unanswered Questions.International journal of molecular sciences · 2023Review
- From magic spot ppGpp to MESH1: Stringent response from bacteria to metazoa.PLoS pathogens · 2023Article
- Article
- Pseudomonas aeruginosa SutA wedges RNAP lobe domain open to facilitate promoter DNA unwinding.Nature communications · 2022Article
- Spatiotemporal Coupling of DNA Supercoiling and Genomic Sequence Organization-A Timing Chain for the Bacterial Growth Cycle?Biomolecules · 2022Review
- Article
- A non-native C-terminal extension of the β' subunit compromises RNA polymerase and Rho functions.Molecular microbiology · 2022Article
- Pathophysiology of enteropathogenicJournal of veterinary science · 2022Review
- Diverse molecular mechanisms of transcription regulation by the bacterial alarmone ppGpp.Molecular microbiology · 2022Review
- The extended (p)ppGpp family: New dimensions in Stress response.Current research in microbial sciences · 2021Review
- Structural basis of RNA polymerase inhibition by viral and host factors.Nature communications · 2021Article
63 more citing papers are in PubMed but not listed here.
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3 authors.
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Abstract
Guanosine tetraphosphate (ppGpp) is an alarmone that enables bacteria to adapt to their environment. It has been known for years that ppGpp acts directly on RNA polymerase (RNAP) to alter the rate of transcription, but its exact target site is still under debate. Here we report a crystal structure of Escherichia coli RNAP holoenzyme in complex with ppGpp at 4.5 Å resolution. The structure reveals that ppGpp binds at an interface between the shelf and core modules on the outer surface of RNAP, away from the catalytic center and the nucleic acid binding path. Bound ppGpp connects these two pivotal modules that may restrain the opening of the RNAP cleft. A detailed mechanism of action of ppGpp is proposed in which ppGpp prevents the closure of the active center that is induced by the binding of NTP, which could slow down nucleotide addition cycles and destabilize the initial transcription complexes.
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