SMTL ID : 7py4.1

Cryo-EM structure of ATP8B1-CDC50A in E2P autoinhibited state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 8 residues within 4Å: Chain A: W.376 Chain B: N.152, M.154, N.156, N.211, N.274, Y.275, P.276 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: D.459, T.461, D.898, D.902 Ligands: BEF.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.459, A:T.461, A:D.898

1 x BEF: BERYLLIUM TRIFLUORIDE ION(Covalent)

BEF.3: 10 residues within 4Å: Chain A: G.238, D.459, K.460, T.461, T.737, G.738, K.878, N.901, D.902 Ligands: MG.2 No protein-ligand interaction detected (PLIP)

4 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.4: 6 residues within 4Å: Chain A: I.1051, F.1054, L.1061 Chain B: F.300 Ligands: Y01.5, Y01.7 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:F.300, A:I.1051, A:F.1054, A:L.1061 Y01.5: 8 residues within 4Å: Chain A: W.972, F.975, F.976, L.1047, M.1050, F.1054 Chain B: Y.104 Ligands: Y01.4 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:W.972, A:W.972, A:F.975, A:F.976, A:L.1047, A:F.1054, A:F.1054 Hydrogen bonds: B:Y.104 Y01.6: 8 residues within 4Å: Chain A: L.355, L.356, G.359, Y.366, Q.370, V.371, F.971, Y.979 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.355, A:L.356, A:F.971, A:Y.979 Y01.7: 9 residues within 4Å: Chain A: V.1160 Chain B: F.300, I.303, A.304, A.307, V.308, I.311, L.315 Ligands: Y01.4 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.300, B:A.304, B:V.308, B:I.311, B:L.315

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.8: 2 residues within 4Å: Chain B: F.79, N.270 No protein-ligand interaction detected (PLIP) NAG.9: 3 residues within 4Å: Chain B: P.66, T.81, N.83 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dieudonne, T. et al., Autoinhibition and regulation by phosphoinositides of ATP8B1, a human lipid flippase associated with intrahepatic cholestatic disorders. Elife (2022)

Release Date

2022-04-27

Peptides

Phospholipid-transporting ATPase IC: A
Cell cycle control protein 50A: B

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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Phospholipid-transporting ATPase IC

Cell cycle control protein 50A