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TitleDrug-bound outward-facing conformation of a heterodimeric ABC exporter suggests a putative mechanism of drug translocation.
Journal, issue, pagesNat Commun, Vol. 16, Issue 1, Page 10403, Year 2025
Publish dateNov 24, 2025
AuthorsQingyu Tang / Matt Sinclair / Paola Bisignano / Yunsen Zhang / Emad Tajkhorshid / Hassane S Mchaourab /
PubMed AbstractMultidrug transport by ATP binding cassette (ABC) exporters entails a mechanism to modulate drug affinity across the transport cycle. Here, we combine cryo-EM and molecular dynamics (MD) simulations ...Multidrug transport by ATP binding cassette (ABC) exporters entails a mechanism to modulate drug affinity across the transport cycle. Here, we combine cryo-EM and molecular dynamics (MD) simulations to illuminate a lipid-competition mechanism to drive substrate translocation by ABC exporters. We determine cryo-EM structures of the ABC transporter BmrCD in drug-loaded inward-facing (IF) and outward-facing (OF) conformations in lipid nanodiscs to reveal the structural basis of alternating access, details of drug-transporter interactions, and the scale of drug movement between the two conformations. Remarkably, the structures uncover lipid molecules bound in or near the transporter vestibule along with the drugs. MD trajectories from the IF structure show that these lipids stimulate drug disorder and translocation towards the innermost constricted region of the vestibule. Similarly, bound lipids enter the OF vestibule and weaken drug-transporter interactions facilitating drug release. Our results complete a near-atomic model of BmrCD's conformational cycle and suggest the modulation of substrate-transporter interactions by lipids.
External linksNat Commun / PubMed:41285748 / PubMed Central
MethodsEM (single particle)
Resolution3.1 - 3.4 Å
Structure data

45938

9cup

EMDB-45938, PDB-9cup:
BmrCD in inward-facing conformation bound to Hoechsts
Method: EM (single particle) / Resolution: 3.4 Å

45939

9cur

EMDB-45939, PDB-9cur:
BmrCD in the inward-facing conformation bound to Hoechsts and lipids
Method: EM (single particle) / Resolution: 3.4 Å

45940

9cus

EMDB-45940, PDB-9cus:
BmrCD in the outward-facing conformation bound to Hoechsts
Method: EM (single particle) / Resolution: 3.1 Å

Chemicals

ChemComp-POV:
(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate / phospholipid*YM

ChemComp-ATP:
ADENOSINE-5'-TRIPHOSPHATE / ATP, energy-carrying molecule*YM

ChemComp-MG:
Unknown entry

ChemComp-HT1:
2'-(4-ETHOXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE

ChemComp-AOV:
ADP ORTHOVANADATE / energy-carrying molecule analogue*YM

Source
  • bacillus subtilis subsp. subtilis str. 168 (bacteria)
KeywordsMEMBRANE PROTEIN / ABC transporter / Exporter / transport

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