Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 85.78 kDa 
• Atom Count: 4834 
• Modelled Residue Count: 598 
• Deposited Residue Count: 752 
• Unique protein chains: 1

5H7Z

Apo structure of immunity protein TplEi of T6SS from Pseudomonas aeruginosa

• PDB DOI: 10.2210/pdb5H7Z/pdb

• Classification: HYDROLASE INHIBITOR
• Organism(s): Pseudomonas aeruginosa PAO1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-11-21 Released: 2017-10-04 
• Deposition Author(s): Gao, X.P., Mu, Z.X., Cui, S.
• Funding Organization(s): Beijing Natural Science Foundation, National Natural Science Foundation of China

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.06 Å
• R-Value Free: 0.245 
• R-Value Work: 0.203 
• R-Value Observed: 0.205 

Literature

Structure-Based Prototype Peptides Targeting the Pseudomonas aeruginosa Type VI Secretion System Effector as a Novel Antibacterial Strategy

Gao, X.P., Mu, Z.X., Qin, B., Sun, Y., Cui, S.

(2017) Front Cell Infect Microbiol 7: 411-411

• PubMed: 28979890 
• DOI: 10.3389/fcimb.2017.00411
• Primary Citation of Related Structures:  
  5H7Y, 5H7Z


• PubMed Abstract: 
  

The type VI secretion system (T6SS) secretes numerous toxins for bacteria-bacteria competition. TplE is a newly identified trans-kingdom toxin secreted by the T6SS in Pseudomonas aeruginosa , while TplEi neutralizes the toxic effect of TplE to protect bacteria autointoxication. Blocking the interaction of TplE-TplEi could unleash the toxin, causing bacterial cell death. In this study, we applied a crystallographic approach to design a structural-based antimicrobial peptides targeting the interaction of TplE and TplEi. We found that a peptide (designed as "L" peptide based on its shape) derived from TplE can form a crystal complex with TplEi after subtilisin treatment and the crystal structure was solved at 2.2Å. The "L" peptide displays strong binding affinity to TplEi in vitro and can release the TplE toxin to induce bacteria death in vivo . Our findings suggest that as a toxin activator, the "L" peptide could be a possible drug lead for treating P. aeruginosa infection. Our findings provide an example that the T6SS effector and immunity protein could be a potential drug target against bacteria infection.

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Organizational Affiliation: 

MOH Key Laboratory of Systems Biology of Pathogens, Institute of Pathogen Biology, Chinese Academy of Medical Sciences and Peking Union Medical CollegeBeijing, China.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein	A, B	376	Pseudomonas aeruginosa PAO1	Mutation(s): 0  Gene Names: PA1509
UniProt
Find proteins for Q9I3K3 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q9I3K3  Go to UniProtKB:  Q9I3K3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth B], K [auth B], L [auth B], M [auth B], N [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.06 Å
• R-Value Free: 0.245 
• R-Value Work: 0.203 
• R-Value Observed: 0.205 
• Space Group: I 4₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 182.227	α = 90
b = 182.227	β = 90
c = 78.873	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
SHARP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2016-11-21 
• Released Date: 2017-10-04 
Deposition Author(s): Gao, X.P., Mu, Z.X., Cui, S.

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Funding Organization	Location	Grant Number
Beijing Natural Science Foundation	China	7154226
National Natural Science Foundation of China	China	81401714
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Revision History  

• Version 1.0: 2017-10-04
  Type: Initial release
  
• Version 1.1: 2017-10-18
  Changes: Database references