8BFN

E. coli Wadjet JetABC dimer of dimers


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.52 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

DNA-measuring Wadjet SMC ATPases restrict smaller circular plasmids by DNA cleavage.

Liu, H.W.Roisne-Hamelin, F.Beckert, B.Li, Y.Myasnikov, A.Gruber, S.

(2022) Mol Cell 82: 4727-4740.e6

  • DOI: https://doi.org/10.1016/j.molcel.2022.11.015
  • Primary Citation of Related Structures:  
    8AS8, 8BFN

  • PubMed Abstract: 

    Structural maintenance of chromosome (SMC) complexes fold DNA by loop extrusion to support chromosome segregation and genome maintenance. Wadjet systems (JetABCD/MksBEFG/EptABCD) are derivative SMC complexes with roles in bacterial immunity against selfish DNA. Here, we show that JetABCD restricts circular plasmids with an upper size limit of about 100 kb, whereas a linear plasmid evades restriction. Purified JetABCD complexes cleave circular DNA molecules, regardless of the DNA helical topology; cleavage is DNA sequence nonspecific and depends on the SMC ATPase. A cryo-EM structure reveals a distinct JetABC dimer-of-dimers geometry, with the two SMC dimers facing in opposite direction-rather than the same as observed with MukBEF. We hypothesize that JetABCD is a DNA-shape-specific endonuclease and propose the "total extrusion model" for DNA cleavage exclusively when extrusion of an entire plasmid has been completed by a JetABCD complex. Total extrusion cannot be achieved on the larger chromosome, explaining how self-DNA may evade processing.


  • Organizational Affiliation

    Department of Fundamental Microbiology (DMF), Faculty of Biology and Medicine (FBM), University of Lausanne (UNIL), 1015 Lausanne, Switzerland.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
JetC
A, B, F, G
1,096Escherichia coliMutation(s): 0 
Gene Names: C9160_20650
UniProt
Find proteins for A0A6D0I2P0 (Escherichia coli)
Explore A0A6D0I2P0 
Go to UniProtKB:  A0A6D0I2P0
Entity Groups  
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UniProt GroupA0A6D0I2P0
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
JetB
C, D, H, I
250Escherichia coliMutation(s): 0 
Gene Names: BvCmsKKP036_00455
UniProt
Find proteins for F4SY71 (Escherichia coli M605)
Explore F4SY71 
Go to UniProtKB:  F4SY71
Entity Groups  
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UniProt GroupF4SY71
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
JetA
E, J
554Escherichia coliMutation(s): 0 
Gene Names: WP_171460373
UniProt
Find proteins for A0A4V3QHV5 (Escherichia coli)
Explore A0A4V3QHV5 
Go to UniProtKB:  A0A4V3QHV5
Entity Groups  
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UniProt GroupA0A4V3QHV5
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.52 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)European Union724482

Revision History  (Full details and data files)

  • Version 1.0: 2022-12-14
    Type: Initial release
  • Version 1.1: 2022-12-28
    Changes: Database references
  • Version 1.2: 2024-07-24
    Changes: Data collection