7CKQ

The cryo-EM structure of B. subtilis BmrR transcription activation complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.2 of the entry. See complete history


Literature

The bacterial multidrug resistance regulator BmrR distorts promoter DNA to activate transcription.

Fang, C.Li, L.Zhao, Y.Wu, X.Philips, S.J.You, L.Zhong, M.Shi, X.O'Halloran, T.V.Li, Q.Zhang, Y.

(2020) Nat Commun 11: 6284-6284

  • DOI: https://doi.org/10.1038/s41467-020-20134-y
  • Primary Citation of Related Structures:  
    7CKQ

  • PubMed Abstract: 

    The MerR-family proteins represent a unique family of bacteria transcription factors (TFs), which activate transcription in a manner distinct from canonical ones. Here, we report a cryo-EM structure of a B. subtilis transcription activation complex comprising B. subtilis six-subunit (2αββ'ωε) RNA Polymerase (RNAP) core enzyme, σ A , a promoter DNA, and the ligand-bound B. subtilis BmrR, a prototype of MerR-family TFs. The structure reveals that RNAP and BmrR recognize the upstream promoter DNA from opposite faces and induce four significant kinks from the -35 element to the -10 element of the promoter DNA in a cooperative manner, which restores otherwise inactive promoter activity by shortening the length of promoter non-optimal -35/-10 spacer. Our structure supports a DNA-distortion and RNAP-non-contact paradigm of transcriptional activation by MerR TFs.


  • Organizational Affiliation

    Key Laboratory of Synthetic Biology, CAS Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, 200032, Shanghai, China.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit alpha
A, B
314Bacillus subtilis subsp. subtilis str. 168Mutation(s): 0 
EC: 2.7.7.6
UniProt
Find proteins for P20429 (Bacillus subtilis (strain 168))
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UniProt GroupP20429
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit beta1,193Bacillus subtilis subsp. subtilis str. 168Mutation(s): 0 
EC: 2.7.7.6
UniProt
Find proteins for P37870 (Bacillus subtilis (strain 168))
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UniProt GroupP37870
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit beta'1,199Bacillus subtilis subsp. subtilis str. 168Mutation(s): 0 
EC: 2.7.7.6
UniProt
Find proteins for P37871 (Bacillus subtilis (strain 168))
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit omega67Bacillus subtilis subsp. subtilis str. 168Mutation(s): 0 
EC: 2.7.7.6
UniProt
Find proteins for O35011 (Bacillus subtilis (strain 168))
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UniProt GroupO35011
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
RNA polymerase sigma factor SigA371Bacillus subtilis subsp. subtilis str. 168Mutation(s): 0 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Multidrug-efflux transporter 1 regulatorI [auth G],
J [auth I]
282Bacillus subtilis subsp. subtilis str. 168Mutation(s): 0 
Gene Names: bmrRbmr1RBSU24020
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
UPF0356 protein YkzGK [auth H]69Bacillus subtilis subsp. subtilis str. 168Mutation(s): 0 
UniProt
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Entity ID: 6
MoleculeChains LengthOrganismImage
DNA (50-MER)G [auth 1]50synthetic construct
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Entity ID: 7
MoleculeChains LengthOrganismImage
DNA (50-MER)H [auth 2]50synthetic construct
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.0
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31822001

Revision History  (Full details and data files)

  • Version 1.0: 2020-12-16
    Type: Initial release
  • Version 1.1: 2020-12-23
    Changes: Database references
  • Version 1.2: 2024-03-27
    Changes: Data collection, Database references, Refinement description