8SBQ | pdb_00008sbq

FphE, Staphylococcus aureus fluorophosphonate-binding serine hydrolases E, fluorophosphonate JB101 bound

• PDB DOI: https://doi.org/10.2210/pdb8SBQ/pdb

• Classification: HYDROLASE
• Organism(s): Staphylococcus aureus USA100-CA-126
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-04-04 Released: 2024-04-17 
• Deposition Author(s): Fellner, M.
• Funding Organization(s): Capability Build Funding - New Zealand Synchrotron Group Ltd

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.189 (Depositor), 0.190 (DCC) 
• R-Value Work: 
  0.166 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.167 (Depositor) 

Starting Model: experimental

Literature

FphE, Staphylococcus aureus fluorophosphonate-binding serine hydrolases E, fluorophosphonate JB101 bound

Fellner, M.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 63.35 kDa 
• Atom Count: 5,075 
• Modeled Residue Count: 554 
• Deposited Residue Count: 558 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fluorophosphonate-binding serine hydrolases E	A, B	279	Staphylococcus aureus USA100-CA-126	Mutation(s): 0  Gene Names: SAUSA300_2518 EC: 3
UniProt
Find proteins for Q2FDS6 (Staphylococcus aureus (strain USA300)) Explore Q2FDS6  Go to UniProtKB:  Q2FDS6

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZUV (Subject of Investigation/LOI)	C [auth A], F [auth B]	ethyl (R)-(10-{[(but-3-yn-1-yl)carbamoyl]oxy}decyl)phosphonofluoridate C17 H31 F N O4 P XPLTVISHLDPSGW-XMMPIXPASA-N
MG	D [auth A], E [auth A], G [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.189 (Depositor), 0.190 (DCC) 
• R-Value Work:  0.166 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.167 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.936	α = 90
b = 74.574	β = 91.53
c = 73.862	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-04-17 
Deposition Author(s): Fellner, M.

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Funding Organization	Location	Grant Number
Capability Build Funding - New Zealand Synchrotron Group Ltd	New Zealand	--

Revision History  

• Version 1.0: 2024-04-17
  Type: Initial release
  
• Version 1.1: 2024-11-20
  Changes: Structure summary