SMTL ID : 6hij.1

Cryo-EM structure of the human ABCG2-MZ29-Fab complex with cholesterol and PE lipids docked

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

8 x PEE: 1,2-Dioleoyl-sn-glycero-3-phosphoethanolamine(Non-covalent)

PEE.1: 10 residues within 4Å: Chain A: P.392, Q.393, I.396, A.397, V.401, V.404 Chain B: L.540, I.543, F.547 Ligands: CLR.12 9 PLIP interactions: 5 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:V.401, A:V.401, A:V.404, B:L.540, B:I.543, B:F.547, B:F.547 Hydrogen bonds: A:Q.393, A:Q.393 PEE.7: 4 residues within 4Å: Chain A: W.624, I.639 Ligands: CLR.4, PEE.8 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.639 PEE.8: 7 residues within 4Å: Chain A: P.623, W.624, W.627, V.631 Ligands: CLR.4, CLR.5, PEE.7 No protein-ligand interaction detected (PLIP) PEE.9: 4 residues within 4Å: Chain A: F.373, R.465, L.641 Ligands: CLR.4 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.641 Hydrogen bonds: A:R.465 PEE.16: 3 residues within 4Å: Chain B: W.624 Ligands: CLR.13, PEE.17 No protein-ligand interaction detected (PLIP) PEE.17: 11 residues within 4Å: Chain B: F.511, M.514, Y.518, P.623, W.624, W.627, V.631, A.634 Ligands: CLR.13, CLR.14, PEE.16 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.511, B:F.511, B:Y.518, B:W.627, B:A.634 PEE.18: 6 residues within 4Å: Chain B: F.373, R.465, L.478, L.479, L.641 Ligands: CLR.13 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.478, B:L.479, B:L.641 Salt bridges: B:R.465 PEE.19: 12 residues within 4Å: Chain A: L.540, I.543, F.547 Chain B: P.392, Q.393, I.396, A.397, I.400, V.401, V.404 Ligands: CLR.3, BWQ.20 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:V.401, B:V.401, B:V.404, A:L.540, A:F.547 Hydrogen bonds: B:Q.393, B:Q.393

10 x CLR: CHOLESTEROL(Non-covalent)(Covalent)

CLR.2: 9 residues within 4Å: Chain A: Y.570, F.571, Y.576, W.624, A.632, C.635, I.639, F.640, I.643 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.570, A:F.571, A:A.632, A:I.639, A:F.640, A:I.643 CLR.3: 11 residues within 4Å: Chain A: M.523, A.526, I.527, F.547, M.548, F.551, L.568, F.571, F.640, K.647 Ligands: PEE.19 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.527, A:F.547, A:F.551, A:F.571, A:F.640 CLR.4: 11 residues within 4Å: Chain A: S.467, L.471, A.634, I.637, V.638, L.641, T.642, Y.645 Ligands: PEE.7, PEE.8, PEE.9 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.471, A:A.634, A:I.637, A:V.638, A:L.641, A:Y.645, A:Y.645 CLR.5: 6 residues within 4Å: Chain A: D.504, F.507, M.510, M.514, W.627 Ligands: PEE.8 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.507, A:W.627, A:W.627 CLR.6: 8 residues within 4Å: Chain A: R.378, S.381, F.385, L.475, L.479, P.480, M.483, L.484 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.385, A:L.475, A:L.479, A:P.480, A:P.480, A:L.484 CLR.11: 9 residues within 4Å: Chain B: Y.570, F.571, Y.576, W.624, A.632, C.635, I.639, F.640, I.643 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.571, B:A.632, B:I.639, B:F.640, B:I.643 CLR.12: 10 residues within 4Å: Chain B: M.523, I.527, F.547, M.548, F.551, L.568, F.571, F.640, K.647 Ligands: PEE.1 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.527, B:F.547, B:F.551, B:F.571, B:F.640 CLR.13: 9 residues within 4Å: Chain B: S.467, L.471, A.634, L.641, T.642, Y.645 Ligands: PEE.16, PEE.17, PEE.18 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.471, B:A.634, B:L.641, B:Y.645, B:Y.645 CLR.14: 6 residues within 4Å: Chain B: D.504, F.507, M.510, M.514, W.627 Ligands: PEE.17 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.507, B:W.627, B:W.627 CLR.15: 9 residues within 4Å: Chain B: R.378, S.381, K.382, F.385, L.475, L.479, P.480, M.483, L.484 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.385, B:L.475, B:L.479, B:P.480, B:P.480, B:L.484

2 x BWQ: ~{tert}-butyl 3-[(2~{S},5~{S},8~{S})-14-cyclopentyloxy-2-(2-methylpropyl)-4,7-bis(oxidanylidene)-3,6,17-triazatetracyclo[8.7.0.0^{3,8}.0^{11,16}]heptadeca-1(10),11,13,15-tetraen-5-yl]propanoate(Non-covalent)

BWQ.10: 16 residues within 4Å: Chain A: A.397, V.401, L.405, F.431, F.432, T.435, N.436, F.439, S.440 Chain B: L.539, T.542, I.543, V.546, M.549, L.555 Ligands: BWQ.20 16 PLIP interactions: 9 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:A.397, A:V.401, A:L.405, A:F.431, A:F.432, A:F.439, A:F.439, A:F.439, B:L.539, B:L.539, B:T.542, B:V.546, B:V.546, B:M.549, B:L.555 Hydrogen bonds: A:T.435 BWQ.20: 17 residues within 4Å: Chain A: L.539, T.542, I.543, V.546, M.549, L.555 Chain B: A.397, V.401, L.405, F.431, F.432, T.435, N.436, F.439, S.440 Ligands: BWQ.10, PEE.19 15 PLIP interactions: 6 interactions with chain A, 9 interactions with chain B Hydrophobic interactions: A:L.539, A:L.539, A:T.542, A:V.546, A:V.546, A:L.555, B:A.397, B:V.401, B:L.405, B:F.431, B:F.432, B:F.439, B:F.439, B:F.439 Hydrogen bonds: B:T.435

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jackson, S.M. et al., Structural basis of small-molecule inhibition of human multidrug transporter ABCG2. Nat.Struct.Mol.Biol. (2018)

Release Date

2018-09-19

Peptides

ATP-binding cassette sub-family G member 2: 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 G member 2

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