Biological Assembly 1  

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: mass spectrometry

Macromolecule Content

• Total Structure Weight: 161.08 kDa 
• Atom Count: 11,721 
• Modelled Residue Count: 1,460 
• Deposited Residue Count: 1,466 
• Unique protein chains: 1

 6R5O

The crystal structure the Glycoside Hydrolase BglX inactive mutant D286N from P. aeruginosa in complex with two glucose molecules

• PDB DOI:  https://doi.org/10.2210/pdb6R5O/pdb

• Classification: HYDROLASE
• Organism(s): Pseudomonas aeruginosa PAO1
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2019-03-25 Released: 2020-04-15 
• Deposition Author(s): Batuecas, M.T., Hermoso, J.A.
• Funding Organization(s): National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.276 
• R-Value Work: 0.238 
• R-Value Observed: 0.239 

Literature

Catalytic Cycle of Glycoside Hydrolase BglX fromPseudomonas aeruginosaand Its Implications for Biofilm Formation.

Mahasenan, K.V., Batuecas, M.T., De Benedetti, S., Kim, C., Rana, N., Lee, M., Hesek, D., Fisher, J.F., Sanz-Aparicio, J., Hermoso, J.A., Mobashery, S.

(2020) ACS Chem Biol 15: 189-196

• PubMed: 31877028 
• DOI: https://doi.org/10.1021/acschembio.9b00754
• Primary Citation of Related Structures:  
  6R5I, 6R5N, 6R5O, 6R5P, 6R5R, 6R5T, 6R5U, 6R5V


• PubMed Abstract: 
  

BglX is a heretofore uncharacterized periplasmic glycoside hydrolase (GH) of the human pathogen Pseudomonas aeruginosa . X-ray analysis identifies it as a protein homodimer. The two active sites of the homodimer comprise catalytic residues provided by each monomer. This arrangement is seen in <2% of the hydrolases of known structure. In vitro substrate profiling shows BglX is a catalyst for β-(1→2) and β-(1→3) saccharide hydrolysis. Saccharides with β-(1→4) or β-(1→6) bonds, and the β-(1→4) muropeptides from the cell-wall peptidoglycan, are not substrates. Additional structural insights from X-ray analysis (including structures of a mutant enzyme-derived Michaelis complex, two transition-state mimetics, and two enzyme-product complexes) enabled the comprehensive description of BglX catalysis. The half-chair ( ⁴ H ₃ ) conformation of the transition-state oxocarbenium species, the approach of the hydrolytic water molecule to the oxocarbenium species, and the stepwise release of the two reaction products were also visualized. The substrate pattern for BglX aligns with the [β-(1→2)-Glc] _x and [β-(1→3)-Glc] _x periplasmic osmoregulated periplasmic glucans, and possibly with the Psl exopolysaccharides, of P. aeruginosa . Both polysaccharides are implicated in biofilm formation. Accordingly, we show that inactivation of the bglX gene of P. aeruginosa PAO1 attenuates biofilm formation.

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Organizational Affiliation: 

Department of Chemistry and Biochemistry , University of Notre Dame , Notre Dame , Indiana 46556 , United States.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Periplasmic beta-glucosidase	A [auth B], B [auth A]	733	Pseudomonas aeruginosa PAO1	Mutation(s): 1  Gene Names: bglX, PA1726
UniProt
Find proteins for Q9I311 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q9I311  Go to UniProtKB:  Q9I311

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BGC	C [auth B], D [auth B], F [auth A], G [auth A]	beta-D-glucopyranose C6 H12 O6 WQZGKKKJIJFFOK-VFUOTHLCSA-N
MG	E [auth B], H [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.276 
• R-Value Work: 0.238 
• R-Value Observed: 0.239 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73.505	α = 65.64
b = 74.907	β = 74.18
c = 82.102	γ = 68.9

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-04-15 
Deposition Author(s): Batuecas, M.T., Hermoso, J.A.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)	United States	GM61629

Revision History  

• Version 1.0: 2020-04-15
  Type: Initial release
  
• Version 1.1: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.2: 2022-03-30
  Changes: Author supporting evidence, Database references, Structure summary