8AUC

Structure of peptidoglycan hydrolase Cg1735 from Corynebacterium glutamicum, trigonal crystal form


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.226 
  • R-Value Observed: 0.228 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

FtsEX-independent control of RipA-mediated cell separation in Corynebacteriales.

Gaday, Q.Megrian, D.Carloni, G.Martinez, M.Sokolova, B.Ben Assaya, M.Legrand, P.Brule, S.Haouz, A.Wehenkel, A.M.Alzari, P.M.

(2022) Proc Natl Acad Sci U S A 119: e2214599119-e2214599119

  • DOI: https://doi.org/10.1073/pnas.2214599119
  • Primary Citation of Related Structures:  
    8AU6, 8AUC, 8AUD

  • PubMed Abstract: 

    The bacterial cell wall is a multi-layered mesh, whose major component is peptidoglycan (PG), a sugar polymer cross-linked by short peptide stems. During cell division, a careful balance of PG synthesis and degradation, precisely coordinated both in time and space, is necessary to prevent uncontrolled destruction of the cell wall. In Corynebacteriales, the D,L endopeptidase RipA has emerged as a major PG hydrolase for cell separation, and RipA defaults have major implications for virulence of the human pathogens Mycobacterium tuberculosis and Corynebacterium diphtheriae . However, the precise mechanisms by which RipA mediates cell separation remain elusive. Here we report phylogenetic, biochemical, and structural analysis of the Corynebacterium glutamicum homologue of RipA, Cg1735. The crystal structures of full-length Cg1735 in two different crystal forms revealed the C-terminal NlpC/P60 catalytic domain obtruded by its N-terminal conserved coiled-coil domain, which locks the enzyme in an autoinhibited state. We show that this autoinhibition is relieved by the extracellular core domain of the transmembrane septal protein Cg1604. The crystal structure of Cg1604 revealed a (β/α) protein with an overall topology similar to that of receiver domains from response regulator proteins. The atomic model of the Cg1735-Cg1604 complex, based on bioinformatical and mutational analysis, indicates that a conserved, distal-membrane helical insertion in Cg1604 is responsible for Cg1735 activation. The reported data provide important insights into how intracellular cell division signal(s), yet to be identified, control PG hydrolysis during RipA-mediated cell separation in Corynebacteriales .


  • Organizational Affiliation

    Unité de Microbiologie Structurale, Institut Pasteur, CNRS, Université Paris Cité, Paris 75015, France.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Cell wall-associated hydrolases (Invasion-associated proteins)
A, B
600Corynebacterium glutamicum ATCC 13032Mutation(s): 0 
Gene Names: Cgl1538
UniProt
Find proteins for Q8NQA0 (Corynebacterium glutamicum (strain ATCC 13032 / DSM 20300 / BCRC 11384 / JCM 1318 / LMG 3730 / NCIMB 10025))
Explore Q8NQA0 
Go to UniProtKB:  Q8NQA0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8NQA0
Sequence Annotations
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.226 
  • R-Value Observed: 0.228 
  • Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 230.58α = 90
b = 230.58β = 90
c = 416.69γ = 120
Software Package:
Software NamePurpose
XDSdata reduction
Aimlessdata scaling
SHELXphasing
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Agence Nationale de la Recherche (ANR)FranceANR-13-JSV8-0003, ANR-18-CE92-0003

Revision History  (Full details and data files)

  • Version 1.0: 2023-01-18
    Type: Initial release