2WKH

Crystal structure of the acyl-enzyme OXA-10 K70C-Ampicillin at pH 7


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.791 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.200 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Three Factors that Modulate the Activity of Class D Beta-Lactamases and Interfere with the Post-Translational Carboxylation of Lys70.

Vercheval, L.Bauvois, C.Di Paolo, A.Borel, F.Ferrer, J.Sauvage, E.Matagne, A.Frere, J.Charlier, P.Galleni, M.Kerff, F.

(2010) Biochem.J. 432: 495

  • DOI: 10.1042/BJ20101122
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The activity of class D β-lactamases is dependent on Lys70 carboxylation in the active site. Structural, kinetic and affinity studies show that this post-translational modification can be affected by the presence of a poor substrate such as moxalacta ...

    The activity of class D β-lactamases is dependent on Lys70 carboxylation in the active site. Structural, kinetic and affinity studies show that this post-translational modification can be affected by the presence of a poor substrate such as moxalactam but also by the V117T substitution. Val117 is a strictly conserved hydrophobic residue located in the active site. In addition, inhibition of class D β-lactamases by chloride ions is due to a competition between the side chain carboxylate of the modified Lys70 and chloride ions. Determination of the individual kinetic constants shows that the deacylation of the acyl-enzyme is the rate-limiting step for the wild-type OXA-10 β-lactamase.


    Organizational Affiliation

    Laboratory of Biological Macromolecules, Centre for Protein Engineering, Institut de Chimie B6a, University of Liège, Liège 4000, Belgium.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
BETA-LACTAMASE OXA-10
A, B
248Pseudomonas aeruginosaMutation(s): 1 
Gene Names: bla (oxa10, pse2)
EC: 3.5.2.6
Find proteins for P14489 (Pseudomonas aeruginosa)
Go to UniProtKB:  P14489
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZZ7
Query on ZZ7

Download SDF File 
Download CCD File 
A, B
(2R,4S)-2-[(R)-{[(2R)-2-amino-2-phenylacetyl]amino}(carboxy)methyl]-5,5-dimethyl-1,3-thiazolidine-4-carboxylic acid
AMPICILLIN (open form)
C16 H21 N3 O5 S
KDAWOPKDXRJNHV-MPPDQPJWSA-N
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.791 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.200 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 48.920α = 90.00
b = 97.090β = 90.00
c = 126.130γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
SCALAdata scaling
AMoREphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-08-25
    Type: Initial release
  • Version 1.1: 2012-04-25
    Type: Database references, Derived calculations, Other, Refinement description, Version format compliance
  • Version 1.2: 2014-10-01
    Type: Non-polymer description, Structure summary