5B3R

Crystal structure of metallo-beta-lactamase IMP-18 from Pseudomonas aeruginosa


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.201 
  • R-Value Observed: 0.202 

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This is version 1.2 of the entry. See complete history


Literature

Structural and Mutagenic Analysis of Metallo-beta-Lactamase IMP-18

Furuyama, T.Nonomura, H.Ishii, Y.Hanson, N.D.Shimizu-Ibuka, A.

(2016) Antimicrob Agents Chemother 60: 5521-5526

  • DOI: https://doi.org/10.1128/AAC.00985-16
  • Primary Citation of Related Structures:  
    5B3R

  • PubMed Abstract: 

    IMP-type metallo-β-lactamases (MBLs) are exogenous zinc metalloenzymes that hydrolyze a broad range of β-lactams, including carbapenems. Here we report the crystal structure of IMP-18, an MBL cloned from Pseudomonas aeruginosa, at 2.0-Å resolution. The overall structure of IMP-18 resembles that of IMP-1, with an αβ/βα "folded sandwich" configuration, but the loop that covers the active site has a distinct conformation. The relationship between IMP-18's loop conformation and its kinetic properties was investigated by replacing the amino acid residues that can affect the loop conformation (Lys44, Thr50, and Ile69) in IMP-18 with those occupying the corresponding positions in the well-described enzyme IMP-1. The replacement of Thr50 with Pro considerably modified IMP-18's kinetic properties, specifically those pertaining to meropenem, with the kcat/Km value increased by an order of magnitude. The results indicate that this is a key residue that defines the kinetic properties of IMP-type β-lactamases.


  • Organizational Affiliation

    Department of Material and Biological Chemistry, Faculty of Science, Yamagata University, Yamagata, Japan.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
IMP-18
A, B
228Pseudomonas aeruginosaMutation(s): 0 
Gene Names: IMP-18blaIMP-18imp-18
EC: 3.5.2.6
UniProt
Find proteins for Q5U807 (Pseudomonas aeruginosa)
Explore Q5U807 
Go to UniProtKB:  Q5U807
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5U807
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.201 
  • R-Value Observed: 0.202 
  • Space Group: P 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 78.55α = 90
b = 87.38β = 90
c = 105.75γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling
MOLREPphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-02-15
    Type: Initial release
  • Version 1.1: 2020-02-26
    Changes: Data collection
  • Version 1.2: 2024-03-20
    Changes: Data collection, Database references, Derived calculations