2W1B

The structure of the efflux pump AcrB in complex with bile acid

• PDB DOI: https://doi.org/10.2210/pdb2W1B/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 
• Membrane Protein: Yes  PDBTMMemProtMDmpstruc


• Deposited: 2008-10-17 Released: 2008-12-09 
• Deposition Author(s): Drew, D., Klepsch, M.M., Newstead, S., Flaig, R., De Gier, J.W., Iwata, S., Beis, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.85 Å
• R-Value Free: 0.349 
• R-Value Work: 0.278 
• R-Value Observed: 0.281 

Literature

The Structure of the Efflux Pump Acrb in Complex with Bile Acid.

Drew, D., Klepsch, M.M., Newstead, S., Flaig, R., De Gier, J.W., Iwata, S., Beis, K.

(2008) Mol Membr Biol 25: 677

• PubMed: 19023693 
• DOI: https://doi.org/10.1080/09687680802552257
• Primary Citation of Related Structures:  
  2W1B


• PubMed Abstract: 
  

  Gastrointestinal bacteria, like Escherichia coli, must remove bile acid to survive in the gut. Bile acid removal in E. coli is thought to be mediated primarily by the multidrug efflux pump, AcrB. Here, we present the structure of E. coli AcrB in complex with deoxycholate at 3.85 A resolution. All evidence suggests that bile acid is transported out of the cell via the periplasmic vestibule of the AcrAB-TolC complex.

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Organizational Affiliation: 

Division of Molecular Biosciences, Membrane Protein Crystallography Group and Membrane Protein Laboratory, Imperial College, London, UK.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 114.06 kDa 
• Atom Count: 7,869 
• Modelled Residue Count: 1,032 
• Deposited Residue Count: 1,049 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ACRIFLAVIN RESISTANCE PROTEIN B	A	1,049	Escherichia coli K-12	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for P31224 (Escherichia coli (strain K12)) Explore P31224  Go to UniProtKB:  P31224

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DXC	B [auth A]	(3ALPHA,5BETA,12ALPHA)-3,12-DIHYDROXYCHOLAN-24-OIC ACID C24 H40 O4 KXGVEGMKQFWNSR-LLQZFEROSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.85 Å
• R-Value Free: 0.349 
• R-Value Work: 0.278 
• R-Value Observed: 0.281 
• Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 145.49	α = 90
b = 145.49	β = 90
c = 515.181	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-12-09 
Deposition Author(s): Drew, D., Klepsch, M.M., Newstead, S., Flaig, R., De Gier, J.W., Iwata, S., Beis, K.

Revision History  

• Version 1.0: 2008-12-09
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Refinement description, Version format compliance
• Version 1.2: 2023-12-13
  Changes: Data collection, Database references, Other, Refinement description