7NYW

Cryo-EM structure of the MukBEF-MatP-DNA head module


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Cryo-EM structure of MukBEF reveals DNA loop entrapment at chromosomal unloading sites.

Burmann, F.Funke, L.F.H.Chin, J.W.Lowe, J.

(2021) Mol Cell 81: 4891-4906.e8

  • DOI: https://doi.org/10.1016/j.molcel.2021.10.011
  • Primary Citation of Related Structures:  
    7NYW, 7NYX, 7NYY, 7NYZ, 7NZ0, 7NZ2, 7NZ3, 7NZ4

  • PubMed Abstract: 

    The ring-like structural maintenance of chromosomes (SMC) complex MukBEF folds the genome of Escherichia coli and related bacteria into large loops, presumably by active DNA loop extrusion. MukBEF activity within the replication terminus macrodomain is suppressed by the sequence-specific unloader MatP. Here, we present the complete atomic structure of MukBEF in complex with MatP and DNA as determined by electron cryomicroscopy (cryo-EM). The complex binds two distinct DNA double helices corresponding to the arms of a plectonemic loop. MatP-bound DNA threads through the MukBEF ring, while the second DNA is clamped by the kleisin MukF, MukE, and the MukB ATPase heads. Combinatorial cysteine cross-linking confirms this topology of DNA loop entrapment in vivo. Our findings illuminate how a class of near-ubiquitous DNA organizers with important roles in genome maintenance interacts with the bacterial chromosome.


  • Organizational Affiliation

    MRC Laboratory of Molecular Biology, Structural Studies Division, Cambridge Biomedical Campus, Cambridge, UK. Electronic address: fburmann@mrc-lmb.cam.ac.uk.


Macromolecules

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Chromosome partition protein MukB
A, B
1,482Photorhabdus thracensisMutation(s): 1 
Gene Names: mukBVY86_15870
UniProt
Find proteins for A0A0F7LRY2 (Photorhabdus thracensis)
Explore A0A0F7LRY2 
Go to UniProtKB:  A0A0F7LRY2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0F7LRY2
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Chromosome partition protein MukF
C, D
440Photorhabdus thracensisMutation(s): 0 
Gene Names: mukFVY86_15860
UniProt
Find proteins for A0A0F7LMQ4 (Photorhabdus thracensis)
Explore A0A0F7LMQ4 
Go to UniProtKB:  A0A0F7LMQ4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0F7LMQ4
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Chromosome partition protein MukE
E, F
240Photorhabdus thracensisMutation(s): 0 
Gene Names: mukEVY86_15865
UniProt
Find proteins for A0A0F7LPV6 (Photorhabdus thracensis)
Explore A0A0F7LPV6 
Go to UniProtKB:  A0A0F7LPV6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0F7LPV6
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Acyl carrier protein
G, H
78Escherichia coli BL21(DE3)Mutation(s): 0 
UniProt
Find proteins for P0A6A8 (Escherichia coli (strain K12))
Explore P0A6A8 
Go to UniProtKB:  P0A6A8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A6A8
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Macrodomain Ter protein
I, J
151Photorhabdus thracensisMutation(s): 0 
Gene Names: matPVY86_22090
UniProt
Find proteins for A0A0F7LUV5 (Photorhabdus thracensis)
Explore A0A0F7LUV5 
Go to UniProtKB:  A0A0F7LUV5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0F7LUV5
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChains LengthOrganismImage
matS2 DNA 80 b, oligo FBA76980Photorhabdus thracensis
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 7
MoleculeChains LengthOrganismImage
matS2 DNA 80 b, oligo FBA77080Photorhabdus thracensis
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 8
MoleculeChains LengthOrganismImage
DNA 80 b
M, N
30Photorhabdus thracensis
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-07-07
    Type: Initial release
  • Version 1.1: 2022-03-23
    Changes: Database references, Source and taxonomy, Structure summary