9BZR

Structure of Class A Beta-lactamase from Bordetella bronchiseptica RB50 in a complex with clavulonate

• PDB DOI: https://doi.org/10.2210/pdb9BZR/pdb

• Classification: HYDROLASE
• Organism(s): Bordetella bronchiseptica RB50
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-05-24 Released: 2024-06-12 
• Deposition Author(s): Maltseva, N., Kim, Y., Endres, M., Joachimiak, A., Center for Structural Biology of Infectious Diseases (CSBID)
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 0.207 
• R-Value Work: 0.161 
• R-Value Observed: 0.163 

Starting Model: experimental

Literature

Structure of Class A Beta-lactamase from Bordetella bronchiseptica RB50 in a complex with clavulonate

Maltseva, N., Kim, Y., Endres, M., Joachimiak, 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: 29.32 kDa 
• Atom Count: 2,252 
• Modelled Residue Count: 270 
• Deposited Residue Count: 272 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
class A Beta-lactamase, PenP superfamily	A	272	Bordetella bronchiseptica RB50	Mutation(s): 0  Gene Names: BB2049 EC: 3.5.2.6
UniProt
Find proteins for A0A0H3LUA9 (Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50)) Go to UniProtKB:  A0A0H3LUA9

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TEM (Subject of Investigation/LOI)	C [auth A]	N-(2-HYDROXY-4-OXO-BUTYL)-N-(3-OXO-TRANSPROPENYL)AMINE C7 H11 N O3 FXITUJNZFYVSNC-RCYFRSRISA-N
MLA	B [auth A], D [auth A]	MALONIC ACID C3 H4 O4 OFOBLEOULBTSOW-UHFFFAOYSA-N
CL	E [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 0.207 
• R-Value Work: 0.161 
• R-Value Observed: 0.163 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 75.255	α = 90
b = 41.914	β = 116.96
c = 78.053	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-06-12 
Deposition Author(s): Maltseva, N., Kim, Y., Endres, M., Joachimiak, A., Center for Structural Biology of Infectious Diseases (CSBID)

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	--

Revision History  

• Version 1.0: 2024-06-12
  Type: Initial release
  
• Version 1.1: 2024-10-16
  Changes: Structure summary