9S5K | pdb_00009s5k

ADC-30 class C beta-lactamase in a di-covalent complex with benzoxaborole AK-431

• PDB DOI: https://doi.org/10.2210/pdb9S5K/pdb

• Classification: ANTIMICROBIAL PROTEIN
• Organism(s): Acinetobacter baumannii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2025-07-29 Released: 2025-09-17 
• Deposition Author(s): Hinchliffe, P., Spencer, J.
• Funding Organization(s): European Research Council (ERC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.38 Å
• R-Value Free: 
  0.185 (Depositor), 0.186 (DCC) 
• R-Value Work: 
  0.165 (Depositor), 0.166 (DCC) 
• R-Value Observed: 
  0.166 (Depositor) 

Starting Model: experimental

Literature

ADC-30 class C beta-lactamase in a di-covalent complex with benzoxaborole AK-431

Hinchliffe, P., Spencer, J.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 81.85 kDa 
• Atom Count: 6,842 
• Modeled Residue Count: 717 
• Deposited Residue Count: 720 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-lactamase	A [auth B], B [auth A]	360	Acinetobacter baumannii	Mutation(s): 0  Gene Names: ampC, adc30, FPK63_09015, FPK87_18695, FQZ18_06125 EC: 3.5.2.6
UniProt
Find proteins for A7XM81 (Acinetobacter baumannii) Explore A7XM81  Go to UniProtKB:  A7XM81

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1JLW (Subject of Investigation/LOI)	D [auth B], H [auth A]	2-[(9~{R})-8-oxa-7-boranidabicyclo[4.3.0]nona-1,3,5-trien-9-yl]ethanoic acid C9 H8 B O3 WSUGZMHWDLEWLO-MRVPVSSYSA-N
PO4	C [auth B], F [auth B], G [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
GLY	E [auth B]	GLYCINE C2 H5 N O2 DHMQDGOQFOQNFH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.38 Å
• R-Value Free:  0.185 (Depositor), 0.186 (DCC) 
• R-Value Work:  0.165 (Depositor), 0.166 (DCC) 
• R-Value Observed: 0.166 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.381	α = 90
b = 83.545	β = 90
c = 208.316	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-09-17 
Deposition Author(s): Hinchliffe, P., Spencer, J.

---

Funding Organization	Location	Grant Number
European Research Council (ERC)	European Union	101021207

Revision History  

• Version 1.0: 2025-09-17
  Type: Initial release