5HH4

Crystal structure of metallo-beta-lactamase IMP-1 in complex with a phosphonate-based inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.206 
  • R-Value Work: 0.172 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural basis of metallo-beta-lactamase inhibition by phosphonates

Hinchliffe, P.Tanner, C.A.Labbe, G.Goodfellow, V.J.Krismanich, A.P.Whittle, E.E.Spencer, J.Dmitrienko, G.I.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Beta-lactamase IMP-1
A, B, C, D
230Serratia marcescensMutation(s): 0 
EC: 3.5.2.6
Find proteins for P52699 (Serratia marcescens)
Go to UniProtKB:  P52699
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

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Download CCD File 
A, B, C, D
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

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Download CCD File 
B
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
60M
Query on 60M

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Download CCD File 
A, B
6-(phosphonomethyl)pyridine-2-carboxylic acid
C7 H8 N O5 P
HIDJRVUSOKZHOS-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

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Download CCD File 
B, C, D
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.206 
  • R-Value Work: 0.172 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 48.943α = 90.00
b = 78.309β = 90.00
c = 260.545γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
XDSdata reduction
PHENIXrefinement
Aimlessdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (United Kingdom)United KingdomG1100135
National Institute of Allergy and Infectious Diseases of the U.S. National Institutes of HealthUnited StatesR01AI100560

Revision History 

  • Version 1.0: 2017-01-18
    Type: Initial release
  • Version 1.1: 2017-09-13
    Type: Author supporting evidence