1DXK

Metallo-beta-lactamase from Bacillus cereus 569/H/9 C168S mutant


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.205 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural Effects of the Active Site Mutation Cysteine to Serine in Bacillus Cereus Zinc-Beta-Lactamase

Chantalat, L.Duee, E.Galleni, M.Frere, J.M.Dideberg, O.

(2000) Protein Sci. 9: 1402

  • DOI: 10.1110/ps.9.7.1402

  • PubMed Abstract: 
  • Beta-lactamases are involved in bacterial resistance. Members of the metallo-enzyme class are now found in many pathogenic bacteria and are becoming thus of major clinical importance. Despite the availability of Zn-beta-lactamase X-ray structures the ...

    Beta-lactamases are involved in bacterial resistance. Members of the metallo-enzyme class are now found in many pathogenic bacteria and are becoming thus of major clinical importance. Despite the availability of Zn-beta-lactamase X-ray structures their mechanism of action is still unclear. One puzzling observation is the presence of one or two zincs in the active site. To aid in assessing the role of zinc content in beta-lactam hydrolysis, the replacement by Ser of the zinc-liganding residue Cys168 in the Zn-beta-lactamase from Bacillus cereus strain 569/H/9 was carried out: the mutant enzyme (C168S) is inactive in the mono-Zn form, but active in the di-Zn form. The structure of the mono-Zn form of the C168S mutant has been determined at 1.85 A resolution. Ser168 occupies the same position as Cys168 in the wild-type enzyme. The protein residues mostly affected by the mutation are Asp90-Arg91 and His210. A critical factor for the activity of the mono-Zn species is the distance between Asp90 and the Zn ion, which is controlled by Arg91: a slight movement of Asp90 impairs catalysis. The evolution of a large superfamily including Zn-beta-lactamases suggests that they may not all share the same mechanism.


    Related Citations: 
    • The 3-D Structure of a Zinc Metallo-Beta-Lactamase from Bacillus Cereus Reveals a New Type of Protein Fold
      Carfi, A.,Pares, S.,Duee, E.,Galleni, M.,Duez, C.,Frere, J.M.,Dideberg, O.
      (1995) Embo J. 14: 4914
    • 1.85 A Resolution Structure of the Zinc(II) Beta-Lactamase from Bacillus Cereus
      Carfi, A.,Duee, E.,Galleni, M.,Frere, J.M.,Dideberg, O.
      (1998) Acta Crystallogr.,Sect.D 54: 313


    Organizational Affiliation

    Laboratoire de Cristallographie Macromol├ęculaire, Institut de Biologie Structurale Jean-Pierre Ebel, CNRS/CEA, Grenoble, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CLASS B BETA-LACTAMASE
A
227Bacillus cereusGene Names: blm
EC: 3.5.2.6
Find proteins for P04190 (Bacillus cereus)
Go to UniProtKB:  P04190
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
BCT
Query on BCT

Download SDF File 
Download CCD File 
A
BICARBONATE ION
C H O3
BVKZGUZCCUSVTD-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.205 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 52.790α = 90.00
b = 61.250β = 92.93
c = 69.280γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
X-PLORphasing
CCP4data scaling
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2000-08-25
    Type: Initial release
  • Version 1.1: 2014-02-05
    Type: Derived calculations, Other, Source and taxonomy, Version format compliance