4Y9N

PA3825-EAL Metal-Free-Apo Structure - Magnesium Co-crystallisation

• PDB DOI: https://doi.org/10.2210/pdb4Y9N/pdb

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


• Deposited: 2015-02-17 Released: 2016-03-09 
• Deposition Author(s): Bellini, D., Horrell, S., Wagner, A., Strange, R., Walsh, M.A.
• Funding Organization(s): Wellcome Trust

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.92 Å
• R-Value Free: 0.225 
• R-Value Work: 0.193 
• R-Value Observed: 0.195 

Literature

Structure of PA3825 from P. aeruginosa bound to cyclic di-GMP and pGpG: new insights for a potential three-metal catalytic mechanism of EAL domains

Bellini, D., Horrell, S., Wagner, A., Strange, R., Hutchin, A., Webb, J.S., Tews, I., Walsh, M.A.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 29.22 kDa 
• Atom Count: 2,273 
• Modelled Residue Count: 256 
• Deposited Residue Count: 263 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PA3825-EAL	A	263	Pseudomonas aeruginosa PAO1	Mutation(s): 0  Gene Names: PA3825 EC: 3.1.4.52
UniProt
Find proteins for Q9HXH7 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q9HXH7  Go to UniProtKB:  Q9HXH7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	B [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.92 Å
• R-Value Free: 0.225 
• R-Value Work: 0.193 
• R-Value Observed: 0.195 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.44	α = 90
b = 64.44	β = 90
c = 134.27	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
xia2	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2016-03-09 
Deposition Author(s): Bellini, D., Horrell, S., Wagner, A., Strange, R., Walsh, M.A.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	--

Revision History  

• Version 1.0: 2016-03-09
  Type: Initial release
  
• Version 2.0: 2017-08-30
  Changes: Atomic model, Author supporting evidence, Derived calculations
• Version 2.1: 2024-05-08
  Changes: Data collection, Database references