SMTL ID : 8ox8.1

Cryo-EM structure of ATP8B1-CDC50A in E2P autoinhibited "open" conformation

Coordinates

PDB Format

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: 7 residues within 4Å: Chain A: W.371 Chain B: N.184, N.239, L.241, N.302, Y.303, P.304 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:P.304, A:W.371 Hydrogen bonds: B:N.239

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.454, T.456, D.893, D.897 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:T.456, A:D.893

1 x IP9: (2R)-3-{[(R)-{[(1S,2S,3R,4S,5S,6S)-2,6-dihydroxy-3,4,5-tris(phosphonooxy)cyclohexyl]oxy}(hydroxy)phosphoryl]oxy}propane -1,2-diyl dioctanoate(Non-covalent)

IP9.3: 11 residues within 4Å: Chain A: R.952, R.1032, V.1035, L.1038, H.1039, L.1042, I.1046, P.1159, I.1163, R.1164, S.1167 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.1042, A:I.1046, A:P.1159 Hydrogen bonds: A:R.952, A:R.1032, A:R.1164, A:S.1167 Salt bridges: A:R.952, A:R.1032, A:R.1032, A:H.1039, A:H.1039, A:R.1164

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

NAG.4: 2 residues within 4Å: Chain B: N.111, R.294 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.111, B:R.294, B:R.294 NAG.5: 4 residues within 4Å: Chain B: F.107, T.109, E.188, N.298 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dieudonne, T. et al., Activation and substrate specificity of the human P4-ATPase ATP8B1. Nat Commun (2023)

Release Date

2023-11-29

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

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