6G1T

TraN, a repressor of an Enterococcus conjugative type IV secretion system

• PDB DOI:  https://doi.org/10.2210/pdb6G1T/pdb
• NAKB: 6G1T

• Classification: DNA BINDING PROTEIN
• Organism(s): Enterococcus faecalis, Plasmid pIP501
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-03-22 Released: 2018-07-25 
• Deposition Author(s): Goessweiner-Mohr, N., Kohler, V., Keller, W.
• Funding Organization(s): Austrian Science Fund

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.93 Å
• R-Value Free: 0.212 
• R-Value Work: 0.181 

Literature

TraN: A novel repressor of an Enterococcus conjugative type IV secretion system.

Kohler, V., Goessweiner-Mohr, N., Aufschnaiter, A., Fercher, C., Probst, I., Pavkov-Keller, T., Hunger, K., Wolinski, H., Buttner, S., Grohmann, E., Keller, W.

(2018) Nucleic Acids Res 46: 9201-9219

• PubMed: 30060171 
• DOI: https://doi.org/10.1093/nar/gky671
• Primary Citation of Related Structures:  
  6G1T


• PubMed Abstract: 
  

The dissemination of multi-resistant bacteria represents an enormous burden on modern healthcare. Plasmid-borne conjugative transfer is the most prevalent mechanism, requiring a type IV secretion system that enables bacteria to spread beneficial traits, such as resistance to last-line antibiotics, among different genera. Inc18 plasmids, like the Gram-positive broad host-range plasmid pIP501, are substantially involved in propagation of vancomycin resistance from Enterococci to methicillin-resistant strains of Staphylococcus aureus. Here, we identified the small cytosolic protein TraN as a repressor of the pIP501-encoded conjugative transfer system, since deletion of traN resulted in upregulation of transfer factors, leading to highly enhanced conjugative transfer. Furthermore, we report the complex structure of TraN with DNA and define the exact sequence of its binding motif. Targeting this protein-DNA interaction might represent a novel therapeutic approach against the spreading of antibiotic resistances.

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Organizational Affiliation: 

BioTechMed-Graz, Austria.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: isothermal titration calorimetry

Macromolecule Content

• Total Structure Weight: 35.55 kDa 
• Atom Count: 2,363 
• Modelled Residue Count: 176 
• Deposited Residue Count: 190 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AM32	A	122	Enterococcus faecalis	Mutation(s): 0  Gene Names: DAI13_17925, H9Q64_00960, KUB3007_P30330
UniProt
Find proteins for Q7BVV5 (Enterococcus faecalis) Explore Q7BVV5  Go to UniProtKB:  Q7BVV5

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (34-MER)	B [auth E]	34	Plasmid pIP501

Entity ID: 3
Molecule	Chains	Length	Organism	Image
DNA (34-MER)	C [auth D]	34	Plasmid pIP501

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EPE	D [auth A]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.93 Å
• R-Value Free: 0.212 
• R-Value Work: 0.181 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 122.77	α = 90
b = 44.17	β = 90.86
c = 56.46	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2018-07-25 
Deposition Author(s): Goessweiner-Mohr, N., Kohler, V., Keller, W.

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Funding Organization	Location	Grant Number
Austrian Science Fund	Austria	P27383

Revision History  

• Version 1.0: 2018-07-25
  Type: Initial release
  
• Version 1.1: 2018-08-15
  Changes: Data collection, Database references
• Version 1.2: 2018-10-10
  Changes: Data collection, Database references