The structure of BrlR bound to c-di-GMP

Experimental Data Snapshot

  • Resolution: 2.50 Å
  • R-Value Free: 0.270 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.215 

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BrlR from Pseudomonas aeruginosa is a receptor for both cyclic di-GMP and pyocyanin.

Wang, F.He, Q.Yin, J.Xu, S.Hu, W.Gu, L.

(2018) Nat Commun 9: 2563-2563

  • DOI: https://doi.org/10.1038/s41467-018-05004-y
  • Primary Citation of Related Structures:  
    5XBI, 5XBT, 5XBW

  • PubMed Abstract: 

    The virulence factor pyocyanin and the intracellular second messenger cyclic diguanylate monophosphate (c-di-GMP) play key roles in regulating biofilm formation and multi-drug efflux pump expression in Pseudomonas aeruginosa. However, the crosstalk between these two signaling pathways remains unclear. Here we show that BrlR (PA4878), previously identified as a c-di-GMP responsive transcriptional regulator, acts also as a receptor for pyocyanin. Crystal structures of free BrlR and c-di-GMP-bound BrlR reveal that the DNA-binding domain of BrlR contains two separate c-di-GMP binding sites, both of which are involved in promoting brlR expression. In addition, we identify a pyocyanin-binding site on the C-terminal multidrug-binding domain based on the structure of the BrlR-C domain in complex with a pyocyanin analog. Biochemical analysis indicates that pyocyanin enhances BrlR-DNA binding and brlR expression in a concentration-dependent manner.

  • Organizational Affiliation

    State Key Laboratory of Microbial Technology, Shandong University, Jinan, 250100, Shandong, China.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Probable transcriptional regulator
A, B
272Pseudomonas aeruginosa PAO1Mutation(s): 0 
Gene Names: PA4878
Find proteins for Q9HUT5 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
Explore Q9HUT5 
Go to UniProtKB:  Q9HUT5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9HUT5
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on C2E

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C [auth A],
D [auth A],
J [auth B],
K [auth B]
C20 H24 N10 O14 P2
Query on PEG

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F [auth A]
G [auth A]
H [auth A]
N [auth B]
O [auth B]
F [auth A],
G [auth A],
H [auth A],
N [auth B],
O [auth B],
P [auth B]
C4 H10 O3
Query on GOL

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E [auth A],
L [auth B],
M [auth B]
C3 H8 O3
Query on IMD

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I [auth A],
Q [auth B]
C3 H5 N2
Experimental Data & Validation

Experimental Data

  • Resolution: 2.50 Å
  • R-Value Free: 0.270 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.215 
  • Space Group: I 4
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 135.924α = 90
b = 135.924β = 90
c = 94.566γ = 90
Software Package:
Software NamePurpose
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-05-02
    Type: Initial release
  • Version 1.1: 2019-04-03
    Changes: Data collection, Database references
  • Version 1.2: 2024-03-27
    Changes: Data collection, Database references, Structure summary