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Yorodumi- PDB-8g7e: Cryo-EM structure of 3DVA component 0 of Escherichia coli que-PEC... -
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-Basic information
Entry | Database: PDB / ID: 8g7e | |||||||||||||||
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Title | Cryo-EM structure of 3DVA component 0 of Escherichia coli que-PEC (paused elongation complex) RNA Polymerase plus preQ1 ligand | |||||||||||||||
Components |
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Keywords | TRANSCRIPTION / RNA Polymerase / Riboswitch / preQ1 | |||||||||||||||
Function / homology | Function and homology information DNA-directed RNA polymerase complex / ribonucleoside binding / DNA-directed 5'-3' RNA polymerase activity / DNA-directed RNA polymerase / protein dimerization activity / DNA-templated transcription / magnesium ion binding / DNA binding / zinc ion binding / cytoplasm Similarity search - Function | |||||||||||||||
Biological species | Escherichia coli (E. coli) | |||||||||||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.9 Å | |||||||||||||||
Authors | Porta, J.C. / Chauvier, A. / Deb, I. / Ellinger, E. / Frank, A.T. / Meze, K. / Ohi, M.D. / Walter, N.G. | |||||||||||||||
Funding support | United States, 4items
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Citation | Journal: Nat Struct Mol Biol / Year: 2023 Title: Structural basis for control of bacterial RNA polymerase pausing by a riboswitch and its ligand. Authors: Adrien Chauvier / Jason C Porta / Indrajit Deb / Emily Ellinger / Katarina Meze / Aaron T Frank / Melanie D Ohi / Nils G Walter / Abstract: Folding of nascent transcripts can be modulated by the RNA polymerase (RNAP) that carries out their transcription, and vice versa. A pause of RNAP during transcription of a preQ riboswitch (termed ...Folding of nascent transcripts can be modulated by the RNA polymerase (RNAP) that carries out their transcription, and vice versa. A pause of RNAP during transcription of a preQ riboswitch (termed que-PEC) is stabilized by a previously characterized template consensus sequence and the ligand-free conformation of the nascent RNA. Ligand binding to the riboswitch induces RNAP pause release and downstream transcription termination; however, the mechanism by which riboswitch folding modulates pausing is unclear. Here, we report single-particle cryo-electron microscopy reconstructions of que-PEC in ligand-free and ligand-bound states. In the absence of preQ, the RNA transcript is in an unexpected hyper-translocated state, preventing downstream nucleotide incorporation. Strikingly, on ligand binding, the riboswitch rotates around its helical axis, expanding the surrounding RNAP exit channel and repositioning the transcript for elongation. Our study reveals the tight coupling by which nascent RNA structures and their ligands can functionally regulate the macromolecular transcription machinery. | |||||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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PDBx/mmCIF format | 8g7e.cif.gz | 611.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8g7e.ent.gz | 483.7 KB | Display | PDB format |
PDBx/mmJSON format | 8g7e.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8g7e_validation.pdf.gz | 1.5 MB | Display | wwPDB validaton report |
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Full document | 8g7e_full_validation.pdf.gz | 1.6 MB | Display | |
Data in XML | 8g7e_validation.xml.gz | 103.1 KB | Display | |
Data in CIF | 8g7e_validation.cif.gz | 155.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/g7/8g7e ftp://data.pdbj.org/pub/pdb/validation_reports/g7/8g7e | HTTPS FTP |
-Related structure data
Related structure data | 29812MC 8f3cC 8g00C 8g1sC 8g2wC 8g4wC 8g8zC M: map data used to model this data C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |