7WAG

Crystal structure of MurJ squeezed form


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.214 
  • R-Value Observed: 0.220 

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This is version 1.2 of the entry. See complete history


Literature

Crystal structure of the lipid flippase MurJ in a "squeezed" form distinct from its inward- and outward-facing forms.

Kohga, H.Mori, T.Tanaka, Y.Yoshikaie, K.Taniguchi, K.Fujimoto, K.Fritz, L.Schneider, T.Tsukazaki, T.

(2022) Structure 30: 1088-1097.e3

  • DOI: 10.1016/j.str.2022.05.008
  • Primary Citation of Related Structures:  
    7WAG, 7WAW, 7WAX

  • PubMed Abstract: 
  • The bacterial peptidoglycan enclosing the cytoplasmic membrane is a fundamental cellular architecture. The integral membrane protein MurJ plays an essential role in flipping the cell wall building block Lipid II across the cytoplasmic membrane for peptidoglycan biosynthesis ...

    The bacterial peptidoglycan enclosing the cytoplasmic membrane is a fundamental cellular architecture. The integral membrane protein MurJ plays an essential role in flipping the cell wall building block Lipid II across the cytoplasmic membrane for peptidoglycan biosynthesis. Previously reported crystal structures of MurJ have elucidated its V-shaped inward- or outward-facing forms with an internal cavity for substrate binding. MurJ transports Lipid II using its cavity through conformational transitions between these two forms. Here, we report two crystal structures of inward-facing forms from Arsenophonus endosymbiont MurJ and an unprecedented crystal structure of Escherichia coli MurJ in a "squeezed" form, which lacks a cavity to accommodate the substrate, mainly because of the increased proximity of transmembrane helices 2 and 8. Subsequent molecular dynamics simulations supported the hypothesis that the squeezed form is an intermediate conformation. This study fills a gap in our understanding of the Lipid II flipping mechanism.


    Organizational Affiliation

    Nara Institute of Science and Technology, Ikoma, Nara 630-0192, Japan. Electronic address: ttsukaza@bs.naist.jp.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Lipid II flippase MurJA522Escherichia coli K-12Mutation(s): 2 
Gene Names: murJmviNyceNb1069JW1056
Membrane Entity: Yes 
UniProt
Find proteins for P0AF16 (Escherichia coli (strain K12))
Explore P0AF16 
Go to UniProtKB:  P0AF16
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0AF16
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.214 
  • R-Value Observed: 0.220 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 74.45α = 90
b = 75.06β = 90
c = 115.21γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
Cootmodel building
XDSdata reduction
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of Science (JSPS)JapanJP21H05155
Japan Society for the Promotion of Science (JSPS)JapanJP21H05153
Japan Society for the Promotion of Science (JSPS)Japan21K19226
Japan Society for the Promotion of Science (JSPS)Japan21KK0125
Japan Society for the Promotion of Science (JSPS)Japan19K22395
Japan Society for the Promotion of Science (JSPS)Japan18KK0197
Japan Society for the Promotion of Science (JSPS)Japan18H02405

Revision History  (Full details and data files)

  • Version 1.0: 2022-06-01
    Type: Initial release
  • Version 1.1: 2022-06-22
    Changes: Database references
  • Version 1.2: 2022-08-17
    Changes: Database references