4A5R | pdb_00004a5r

Crystal structure of class A beta-lactamase from Bacillus licheniformis BS3 with tazobactam

• PDB DOI: https://doi.org/10.2210/pdb4A5R/pdb

• Classification: HYDROLASE
• Organism(s): Bacillus licheniformis
• Mutation(s): No 


• Deposited: 2011-10-28 Released: 2012-10-10 
• Deposition Author(s): Power, P., Sauvage, E., Herman, R., Kerff, F., Charlier, P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.233 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.182 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.185 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Class a Beta-Lactamase from Bacillus Licheniformis Inhibited by Tazobactam

Power, P., Herman, R., Kerff, F., Mercuri, P., Galleni, M., Gutkind, G., Charlier, P., Sauvage, E.

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)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 60.06 kDa 
• Atom Count: 4,373 
• Modeled Residue Count: 514 
• Deposited Residue Count: 530 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BETA-LACTAMASE	A, B	265	Bacillus licheniformis	Mutation(s): 0  EC: 3.5.2.6
UniProt
Find proteins for P94458 (Bacillus licheniformis) Explore P94458  Go to UniProtKB:  P94458

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TBE	C [auth A], G [auth B]	TAZOBACTAM INTERMEDIATE C10 H14 N4 O5 S ANZZKUOZZHRUQC-AARLMMRRSA-N
CIT	D [auth A]	CITRIC ACID C6 H8 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-N
PGE	E [auth A]	TRIETHYLENE GLYCOL C6 H14 O4 ZIBGPFATKBEMQZ-UHFFFAOYSA-N
CO2	F [auth B], H [auth B]	CARBON DIOXIDE C O2 CURLTUGMZLYLDI-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
CIT	BindingDB:  4A5R	Ki: 4.90e+5 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.233 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.182 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.185 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.955	α = 90
b = 103.55	β = 94.77
c = 63.732	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-10-10 
Deposition Author(s): Power, P., Sauvage, E., Herman, R., Kerff, F., Charlier, P.

Revision History  

• Version 1.0: 2012-10-10
  Type: Initial release
  
• Version 1.1: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description
• Version 1.2: 2024-10-09
  Changes: Structure summary