4KG5 | pdb_00004kg5

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

• PDB DOI: https://doi.org/10.2210/pdb4KG5/pdb

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


• Deposited: 2013-04-28 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: 2.11 Å
• R-Value Free: 
  0.232 (Depositor), 0.251 (DCC) 
• R-Value Work: 
  0.179 (Depositor) 
• R-Value Observed: 
  0.182 (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.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Biological Assembly 4  

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

Biological assembly 4 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 160.19 kDa 
• Atom Count: 11,765 
• Modeled Residue Count: 1,432 
• Deposited Residue Count: 1,432 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-lactamase	A [auth B], B [auth A], C, D	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
CEF	F [auth B], J [auth A], K [auth C], M [auth D]	CEFOTAXIME, C3' cleaved, open, bound form C14 H15 N5 O5 S2 NRYMPLKBKFIWQC-YVCCLBOHSA-N
PO4	E [auth B], G [auth A], H [auth A], I [auth A], L [auth D]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.11 Å
• R-Value Free:  0.232 (Depositor), 0.251 (DCC) 
• R-Value Work:  0.179 (Depositor) 
• R-Value Observed: 0.182 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 163.367	α = 90
b = 80.348	β = 103.99
c = 129.79	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 2.0: 2018-09-19
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary
• Version 2.1: 2024-11-20
  Changes: Data collection, Database references, Derived calculations, Structure summary