SMTL ID : 6k7n.1

Cryo-EM structure of the human P4-type flippase ATP8A1-CDC50 (E1P state)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

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

NAG-NAG-MAN.1: 7 residues within 4Å: Chain A: W.333 Chain B: N.180, V.234, N.235, L.237, N.298, P.300 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:P.300 Hydrogen bonds: B:N.235

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.2: 9 residues within 4Å: Chain A: D.414, K.415, T.416, L.674, T.675, G.676, K.771, N.794 Ligands: MG.4 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.414

1 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.3: 11 residues within 4Å: Chain A: I.944, W.947, F.948, A.1051, L.1054 Chain B: P.323, F.324, I.327, A.328, A.331, I.335 12 PLIP interactions: 6 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:P.323, B:F.324, B:F.324, B:I.327, B:A.331, B:I.335, A:I.944, A:W.947, A:W.947, A:F.948, A:A.1051, A:L.1054

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 6 residues within 4Å: Chain A: D.414, T.416, D.791, D.795, E.812 Ligands: ALF.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.414, A:T.416, A:D.791

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

NAG.5: 4 residues within 4Å: Chain B: F.103, F.186, P.194, N.294 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.294 NAG.6: 3 residues within 4Å: Chain B: P.90, T.105, N.107 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:P.90

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hiraizumi, M. et al., Cryo-EM structures capture the transport cycle of the P4-ATPase flippase. Science (2019)

Release Date

2019-08-28

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Membrane

We predict this structure to be a membrane protein.
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Phospholipid-transporting ATPase

Cell cycle control protein 50A

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