SMTL ID : 8qcm.1

ABCG2 in complex with MZ82 and 5D3 Fab

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-mer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG-NAG.1: 4 residues within 4Å: Chain A: N.606, G.609 Chain C: T.30, F.54 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 3 residues within 4Å: Chain E: T.30, F.54 Chain F: N.606 No protein-ligand interaction detected (PLIP)

2 x V0U: (2~{S},5~{S},8~{S})-14-methoxy-2-(2-methylpropyl)-5-(phenylmethyl)-3,6,17-triazatetracyclo[8.7.0.0^{3,8}.0^{11,16}]heptadeca-1(10),11,13,15-tetraene-4,7-dione(Non-covalent)

V0U.3: 12 residues within 4Å: Chain A: F.441, F.442, T.445, N.446, F.449 Chain F: F.449, T.548, L.549, T.552, V.556, M.559 Ligands: V0U.7 9 PLIP interactions: 4 interactions with chain A, 5 interactions with chain F Hydrophobic interactions: A:F.442, A:F.449, F:F.449, F:T.548, F:L.549, F:T.552, F:V.556 Hydrogen bonds: A:T.445, A:N.446 V0U.7: 13 residues within 4Å: Chain A: F.449, T.548, L.549, T.552, V.556, M.559 Chain F: F.441, F.442, T.445, N.446, F.449, V.452 Ligands: V0U.3 10 PLIP interactions: 4 interactions with chain A, 6 interactions with chain F Hydrophobic interactions: A:F.449, A:T.548, A:L.549, A:T.552, F:F.442, F:F.449, F:F.449, F:V.452 Hydrogen bonds: F:T.445, F:N.446

6 x CLR: CHOLESTEROL(Non-covalent)

CLR.4: 7 residues within 4Å: Chain A: Y.580, F.581, Y.586, A.642, C.645, F.650 Ligands: CLR.5 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.581, A:A.642, A:F.650 CLR.5: 9 residues within 4Å: Chain A: A.536, I.537, C.554, F.557, F.561, L.578, F.581, K.657 Ligands: CLR.4 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.537, A:F.561, A:F.581 CLR.6: 8 residues within 4Å: Chain A: S.477, L.481, A.644, I.647, V.648, L.651, T.652, Y.655 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.644, A:I.647, A:L.651, A:Y.655 Hydrogen bonds: A:S.477 CLR.8: 8 residues within 4Å: Chain F: I.537, F.557, M.558, F.561, L.578, F.581, K.657 Ligands: CLR.9 5 PLIP interactions: 5 interactions with chain F Hydrophobic interactions: F:I.537, F:F.557, F:F.561, F:L.578, F:F.581 CLR.9: 6 residues within 4Å: Chain F: Y.580, F.581, Y.586, A.642, C.645 Ligands: CLR.8 1 PLIP interactions: 1 interactions with chain F Hydrophobic interactions: F:A.642 CLR.10: 6 residues within 4Å: Chain F: L.481, I.647, V.648, L.651, T.652, Y.655 4 PLIP interactions: 4 interactions with chain F Hydrophobic interactions: F:I.647, F:V.648, F:L.651, F:Y.655

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yu, Q. et al., Modulation of ABCG2 Transporter Activity by Ko143 Derivatives. Acs Chem.Biol. (2024)

Release Date

2024-11-06

Peptides

Broad substrate specificity ATP-binding cassette transporter ABCG2: AF
5D3(Fab) light chain variable domain: BD
5D3(Fab) heavy chain variable domain: CE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

F
B

B
C

D
E

C
D

E
F

Membrane

We predict this structure to be a membrane protein.
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Broad substrate specificity ATP-binding cassette transporter ABCG2

5D3(Fab) light chain variable domain

5D3(Fab) heavy chain variable domain

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