SMTL ID : 7dny.1

Cryo-EM structure of the human ABCB6 (coproporphyrin III-bound)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

5 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.1: 7 residues within 4Å: Chain A: W.299, W.304, T.307 Chain B: L.503, L.507, L.510, L.514 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:L.507, B:L.514, A:W.304, A:W.304, A:T.307 Y01.2: 8 residues within 4Å: Chain A: M.272, G.273, R.276, A.277, V.280, I.284, A.396, F.408 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:R.276, A:R.276, A:V.280, A:V.280, A:A.396, A:F.408 Y01.3: 8 residues within 4Å: Chain A: W.412, L.415, L.419, C.420, L.515, Y.518, F.519, E.522 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.412, A:W.412, A:L.415, A:L.419, A:L.515, A:Y.518 Y01.5: 7 residues within 4Å: Chain A: L.503, L.507, L.510 Chain B: W.299, W.304, T.307, F.311 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:W.304, B:T.307, B:F.311, B:F.311, A:L.503, A:L.507, A:L.510 Y01.6: 8 residues within 4Å: Chain B: M.272, R.276, A.277, V.280, I.284, R.287, Y.404, F.408 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:R.276, B:A.277, B:V.280, B:V.280, B:F.408 Hydrogen bonds: B:Y.404 Salt bridges: B:R.287

1 x HT9: coproporphyrin III(Non-covalent)

HT9.4: 5 residues within 4Å: Chain A: W.546, Y.550, M.553 Chain B: W.546, Y.550 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:W.546, B:W.546

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, S. et al., Structural Insights into Porphyrin Recognition by the Human ATP-Binding Cassette Transporter ABCB6. Mol.Cells (2022)

Release Date

2022-06-22

Peptides

ATP-binding cassette sub-family B member 6, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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ATP-binding cassette sub-family B member 6, mitochondrial

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