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TitleCryo-EM structure of cadmium-bound human ABCB6.
Journal, issue, pagesCommun Biol, Vol. 7, Issue 1, Page 672, Year 2024
Publish dateMay 31, 2024
AuthorsSeung Hun Choi / Sang Soo Lee / Hyeon You Lee / Subin Kim / Ji Won Kim / Mi Sun Jin /
PubMed AbstractATP-binding cassette transporter B6 (ABCB6), a protein essential for heme biosynthesis in mitochondria, also functions as a heavy metal efflux pump. Here, we present cryo-electron microscopy ...ATP-binding cassette transporter B6 (ABCB6), a protein essential for heme biosynthesis in mitochondria, also functions as a heavy metal efflux pump. Here, we present cryo-electron microscopy structures of human ABCB6 bound to a cadmium Cd(II) ion in the presence of antioxidant thiol peptides glutathione (GSH) and phytochelatin 2 (PC2) at resolutions of 3.2 and 3.1 Å, respectively. The overall folding of the two structures resembles the inward-facing apo state but with less separation between the two halves of the transporter. Two GSH molecules are symmetrically bound to the Cd(II) ion in a bent conformation, with the central cysteine protruding towards the metal. The N-terminal glutamate and C-terminal glycine of GSH do not directly interact with Cd(II) but contribute to neutralizing positive charges of the binding cavity by forming hydrogen bonds and van der Waals interactions with nearby residues. In the presence of PC2, Cd(II) binding to ABCB6 is similar to that observed with GSH, except that two cysteine residues of each PC2 molecule participate in Cd(II) coordination to form a tetrathiolate. Structural comparison of human ABCB6 and its homologous Atm-type transporters indicate that their distinct substrate specificity might be attributed to variations in the capping residues situated at the top of the substrate-binding cavity.
External linksCommun Biol / PubMed:38822018 / PubMed Central
MethodsEM (single particle)
Resolution3.1 - 3.2 Å
Structure data

39534

8yr3

EMDB-39534, PDB-8yr3:
Cryo-EM structure of the human ABCB6 in complex with Cd(II):GSH
Method: EM (single particle) / Resolution: 3.2 Å

39535

8yr4

EMDB-39535, PDB-8yr4:
Cryo-EM structure of the human ABCB6 in complex with Cd(II):Phytochelatin 2
Method: EM (single particle) / Resolution: 3.1 Å

Chemicals

ChemComp-GSH:
GLUTATHIONE

ChemComp-CD:
Unknown entry

ChemComp-FGA:
GAMMA-D-GLUTAMIC ACID

Source
  • homo sapiens (human)
  • tracheophyta (vascular plants)
KeywordsMEMBRANE PROTEIN / Cryo-EM / ABC transporter / ATP-binding cassette transporter B6 / ABCB6 / heme biosynthesis / heavy metal detoxification / glutathione / phytochelatin

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