4W4L

Crystal structure of EspG5 in complex with PE25 and PPE41 from the ESX-5 type VII secretion system of M. tuberculosis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.203 

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This is version 1.5 of the entry. See complete history


Literature

Structure of a PE-PPE-EspG complex from Mycobacterium tuberculosis reveals molecular specificity of ESX protein secretion.

Ekiert, D.C.Cox, J.S.

(2014) Proc Natl Acad Sci U S A 111: 14758-14763

  • DOI: https://doi.org/10.1073/pnas.1409345111
  • Primary Citation of Related Structures:  
    4W4I, 4W4J, 4W4K, 4W4L

  • PubMed Abstract: 

    Nearly 10% of the coding capacity of the Mycobacterium tuberculosis genome is devoted to two highly expanded and enigmatic protein families called PE and PPE, some of which are important virulence/immunogenicity factors and are secreted during infection via a unique alternative secretory system termed "type VII." How PE-PPE proteins function during infection and how they are translocated to the bacterial surface through the five distinct type VII secretion systems [ESAT-6 secretion system (ESX)] of M. tuberculosis is poorly understood. Here, we report the crystal structure of a PE-PPE heterodimer bound to ESX secretion-associated protein G (EspG), which adopts a novel fold. This PE-PPE-EspG complex, along with structures of two additional EspGs, suggests that EspG acts as an adaptor that recognizes specific PE-PPE protein complexes via extensive interactions with PPE domains, and delivers them to ESX machinery for secretion. Surprisingly, secretion of most PE-PPE proteins in M. tuberculosis is likely mediated by EspG from the ESX-5 system, underscoring the importance of ESX-5 in mycobacterial pathogenesis. Moreover, our results indicate that PE-PPE domains function as cis-acting targeting sequences that are read out by EspGs, revealing the molecular specificity for secretion through distinct ESX pathways.


  • Organizational Affiliation

    Department of Microbiology and Immunology, University of California, San Francisco, CA 94143 damian.ekiert@ucsf.edu jeffery.cox@ucsf.edu.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
PE family protein PE25109Mycobacterium tuberculosis str. Erdman = ATCC 35801Mutation(s): 0 
Gene Names: PE25ERDMAN_2675Q643_02517
UniProt
Find proteins for A0A0H3LBR3 (Mycobacterium tuberculosis (strain ATCC 35801 / TMC 107 / Erdman))
Explore A0A0H3LBR3 
Go to UniProtKB:  A0A0H3LBR3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0H3LBR3
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
PPE family protein PPE41174Mycobacterium tuberculosis str. Erdman = ATCC 35801Mutation(s): 0 
Gene Names: PPE41ERDMAN_2674Q643_02516
UniProt
Find proteins for A0A0H3LBN6 (Mycobacterium tuberculosis (strain ATCC 35801 / TMC 107 / Erdman))
Explore A0A0H3LBN6 
Go to UniProtKB:  A0A0H3LBN6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0H3LBN6
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
EspG5314Mycobacterium tuberculosis str. Erdman = ATCC 35801Mutation(s): 0 
Gene Names: ERDMAN_1984Q643_01851
UniProt
Find proteins for A0A0H3LAM1 (Mycobacterium tuberculosis (strain ATCC 35801 / TMC 107 / Erdman))
Explore A0A0H3LAM1 
Go to UniProtKB:  A0A0H3LAM1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0H3LAM1
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download Ideal Coordinates CCD File 
D [auth B]1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.203 
  • Space Group: P 61 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 138.64α = 90
b = 138.64β = 90
c = 169.68γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
Blu-Icedata collection
XDSdata reduction
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesR01AI081727
Damon Runyon Cancer Research FoundationUnited KingdomDRG-2140-12

Revision History  (Full details and data files)

  • Version 1.0: 2014-10-01
    Type: Initial release
  • Version 1.1: 2014-10-15
    Changes: Database references
  • Version 1.2: 2014-10-29
    Changes: Database references
  • Version 1.3: 2017-09-27
    Changes: Author supporting evidence, Database references, Derived calculations, Other, Refinement description, Source and taxonomy, Structure summary
  • Version 1.4: 2019-12-11
    Changes: Author supporting evidence
  • Version 1.5: 2023-09-27
    Changes: Data collection, Database references, Refinement description