4KEN | pdb_00004ken

Crystal Structure of AmpC beta-lactamase N152G Mutant in Complex with Cefoxitin

• PDB DOI: https://doi.org/10.2210/pdb4KEN/pdb

• Classification: Hydrolase/Antibiotic
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2013-04-25 Released: 2014-10-29 
• Deposition Author(s): Docter, B.E., Baggett, V.L., Powers, R.A., Wallar, B.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.89 Å
• R-Value Free: 
  0.200 (Depositor), 0.209 (DCC) 
• R-Value Work: 
  0.158 (Depositor), 0.167 (DCC) 
• R-Value Observed: 
  0.160 (Depositor) 

Literature

Complexed structures of AmpC beta-lactamase

Docter, B.E., Baggett, V.L., Powers, R.A., Wallar, B.J.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 40.09 kDa 
• Atom Count: 3,072 
• Modeled Residue Count: 358 
• Deposited Residue Count: 358 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-lactamase	A [auth B]	358	Escherichia coli K-12	Mutation(s): 1  Gene Names: ampC, ampA, b4150, JW4111 EC: 3.5.2.6
UniProt
Find proteins for P00811 (Escherichia coli (strain K12)) Explore P00811  Go to UniProtKB:  P00811

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1S7	D [auth B]	(2R)-2-{(1S)-1-methoxy-2-oxo-1-[(thiophen-2-ylacetyl)amino]ethyl}-5-methylidene-5,6-dihydro-2H-1,3-thiazine-4-carboxylic acid C15 H16 N2 O5 S2 BMQDZZSQSZJJQV-CABCVRRESA-N
PO4	B, C [auth B]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.89 Å
• R-Value Free:  0.200 (Depositor), 0.209 (DCC) 
• R-Value Work:  0.158 (Depositor), 0.167 (DCC) 
• R-Value Observed: 0.160 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 111.192	α = 90
b = 81.488	β = 105.3
c = 47.386	γ = 90

Software Package:

Software Name	Purpose
HKL-3000	data collection
PHASER	phasing
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-10-29 
Deposition Author(s): Docter, B.E., Baggett, V.L., Powers, R.A., Wallar, B.J.

Revision History  

• Version 1.0: 2014-10-29
  Type: Initial release
  
• Version 1.1: 2024-11-06
  Changes: Data collection, Database references, Derived calculations, Structure summary