4ZIW

Crystal structure of AcrB deletion mutant in P21 space group


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.399 Å
  • R-Value Free: 0.349 
  • R-Value Work: 0.275 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structures of Gate Loop Variants of the AcrB Drug Efflux Pump Bound by Erythromycin Substrate.

Ababou, A.Koronakis, V.

(2016) Plos One 11: e0159154-e0159154

  • DOI: 10.1371/journal.pone.0159154
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Gram-negative bacteria such as E. coli use tripartite efflux pumps such as AcrAB-TolC to expel antibiotics and noxious compounds. A key feature of the inner membrane transporter component, AcrB, is a short stretch of residues known as the gate/switch ...

    Gram-negative bacteria such as E. coli use tripartite efflux pumps such as AcrAB-TolC to expel antibiotics and noxious compounds. A key feature of the inner membrane transporter component, AcrB, is a short stretch of residues known as the gate/switch loop that divides the proximal and distal substrate binding pockets. Amino acid substitutions of the gate loop are known to decrease antibiotic resistance conferred by AcrB. Here we present two new AcrB gate loop variants, the first stripped of its bulky side chains, and a second in which the gate loop is removed entirely. By determining the crystal structures of the variant AcrB proteins in the presence and absence of erythromycin and assessing their ability to confer erythromycin tolerance, we demonstrate that the gate loop is important for AcrB export activity but is not required for erythromycin binding.


    Organizational Affiliation

    Department of Pathology, University of Cambridge, Tennis Court Road, Cambridge, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Multidrug efflux pump subunit AcrB
A, B, C, D, E, F
1044Escherichia coli (strain K12)Mutation(s): 1 
Gene Names: acrB (acrE)
Find proteins for P31224 (Escherichia coli (strain K12))
Go to UniProtKB:  P31224
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
LMT
Query on LMT

Download SDF File 
Download CCD File 
A, B, C, D, E, F
DODECYL-BETA-D-MALTOSIDE
C24 H46 O11
NLEBIOOXCVAHBD-QKMCSOCLSA-N
 Ligand Interaction
NI
Query on NI

Download SDF File 
Download CCD File 
A, C, E
NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.399 Å
  • R-Value Free: 0.349 
  • R-Value Work: 0.275 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 152.073α = 90.00
b = 157.781β = 93.14
c = 219.391γ = 90.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
PHENIXrefinement
PHASERphasing
SCALAdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationCountryGrant Number
Medical Research Council (United Kingdom)United Kingdom--

Revision History 

  • Version 1.0: 2016-07-27
    Type: Initial release
  • Version 1.1: 2017-09-13
    Type: Author supporting evidence