1KDW

X-ray crystal structure of AmpC beta-lactamase from E. coli in complex with the inhibitor 4-carboxyphenylboronic acid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.186

Literature

Macromolecules
Sequence Display for 1KDW

Classification: HYDROLASE

Total Structure Weight: 79602.70

Macromolecule Entities
Molecule Chains Length Organism Details
beta-lactamase A, B 358 Escherichia coli EC#: 3.5.2.6 IUBMB
Gene Name(s): ampC ampA b4150 JW4111
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
4CB
Query on 4CB

A, B 4-CARBOXYPHENYLBORONIC ACID
C7 H7 B O4
SIAVMDKGVRXFAX-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
4CB Ki: 2900 nM (100) BindingDB

N/A in BindingMoad
Ki: 2900 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.186
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 118.55 α = 90.00
b = 77.38 β = 115.30
c = 97.33 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-11-13
  • Released Date: 2002-07-17
  • Deposition author(s): Powers, R.A., Shoichet, B.K.

Revision History

  • Version 1_0: 2002-07-17

    Type: Initial release

  • Version 1_1: 2008-04-27

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance