6FN1

Zosuquidar and UIC2 Fab complex of human-mouse chimeric ABCB1 (ABCB1HM)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.58 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of a zosuquidar and UIC2-bound human-mouse chimeric ABCB1.

Alam, A.Kung, R.Kowal, J.McLeod, R.A.Tremp, N.Broude, E.V.Roninson, I.B.Stahlberg, H.Locher, K.P.

(2018) Proc. Natl. Acad. Sci. U.S.A. 115: E1973-E1982

  • DOI: 10.1073/pnas.1717044115
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The multidrug transporter ABCB1 (P-glycoprotein) is an ATP-binding cassette transporter that has a key role in protecting tissues from toxic insult and contributes to multidrug extrusion from cancer cells. Here, we report the near-atomic resolution c ...

    The multidrug transporter ABCB1 (P-glycoprotein) is an ATP-binding cassette transporter that has a key role in protecting tissues from toxic insult and contributes to multidrug extrusion from cancer cells. Here, we report the near-atomic resolution cryo-EM structure of nucleotide-free ABCB1 trapped by an engineered disulfide cross-link between the nucleotide-binding domains (NBDs) and bound to the antigen-binding fragment of the human-specific inhibitory antibody UIC2 and to the third-generation ABCB1 inhibitor zosuquidar. Our structure reveals the transporter in an occluded conformation with a central, enclosed, inhibitor-binding pocket lined by residues from all transmembrane (TM) helices of ABCB1. The pocket spans almost the entire width of the lipid membrane and is occupied exclusively by two closely interacting zosuquidar molecules. The external, conformational epitope facilitating UIC2 binding is also visualized, providing a basis for its inhibition of substrate efflux. Additional cryo-EM structures suggest concerted movement of TM helices from both halves of the transporters associated with closing the NBD gap, as well as zosuquidar binding. Our results define distinct recognition interfaces of ABCB1 inhibitory agents, which may be exploited for therapeutic purposes.


    Organizational Affiliation

    Institute of Molecular Biology and Biophysics, ETH Zürich, 8093 Zürich, Switzerland.,Center for Cellular Imaging and NanoAnalytics, Biozentrum, University of Basel, 4058 Basel, Switzerland.,Institute of Molecular Biology and Biophysics, ETH Zürich, 8093 Zürich, Switzerland; locher@mol.biol.ethz.ch.,Department of Drug Discovery and Biomedical Sciences, College of Pharmacy, University of South Carolina, Columbia, SC 29208.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Human-mouse chimeric ABCB1 (ABCBHM)
A
1249Homo sapiensMutation(s): 0 
Gene Names: ABCB1 (MDR1, PGY1)
Membrane protein
mpstruc
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
ATP Binding Cassette (ABC) Transporters
Protein: 
P-Glycoprotein multi-drug transporter (ABCB1) chimera, Zosuquidar/UIC2 Fab complex
Find proteins for P08183 (Homo sapiens)
Go to Gene View: ABCB1
Go to UniProtKB:  P08183
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
UIC2 Antigen Binding Fragment Light chain
B
220N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
UIC2 Antigen Binding Fragment Heavy Chain
C
225N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download SDF File 
Download CCD File 
A
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
ZQU
Query on ZQU

Download SDF File 
Download CCD File 
A
Zosuquidar
C32 H31 F2 N3 O2
IHOVFYSQUDPMCN-DBEBIPAYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.58 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2018-02-02 
  • Released Date: 2018-02-21 
  • Deposition Author(s): Alam, A., Locher, K.P.

Funding OrganizationLocationGrant Number
Swiss National Science FoundationSwitzerland--
European Molecular Biology OrganizationSwitzerland--
National Institutes of HealthUnited States--

Revision History 

  • Version 1.0: 2018-02-21
    Type: Initial release
  • Version 1.1: 2018-02-28
    Type: Advisory, Author supporting evidence, Database references, Derived calculations
  • Version 1.2: 2018-03-07
    Type: Database references