SMTL ID : 7bsw.1

Cryo-EM structure of a human ATP11C-CDC50A flippase in PtdEtn-occluded E2-AlF state

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.1: 10 residues within 4Å: Chain A: D.172, D.402, K.403, T.404, T.667, G.668, K.788, D.809, N.812, D.813 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.402, A:D.402

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

PEE.2: 24 residues within 4Å: Chain A: T.83, S.84, L.86, P.87, F.90, N.345, F.346, I.348, P.349, V.350, S.351, V.354, T.355, E.357, M.358, F.361, N.905, I.906, C.907, S.910, L.911, G.1021, A.1024, F.1025 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.86, A:P.87, A:F.90, A:F.90, A:F.361, A:F.361, A:L.911, A:F.1025 Hydrogen bonds: A:N.345, A:N.345, A:V.350, A:T.355, A:N.905

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

NAG.3: 6 residues within 4Å: Chain A: W.316 Chain B: N.180, N.235, L.237, N.298 Ligands: NAG.4 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.237 Hydrogen bonds: B:N.235, B:N.298 NAG.4: 6 residues within 4Å: Chain A: W.316 Chain B: N.235, P.300, Y.303 Ligands: NAG.3, MAN.5 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:W.316, B:P.300, B:Y.303 NAG.6: 5 residues within 4Å: Chain B: F.103, T.105, F.186, W.292, N.294 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:F.103 Hydrogen bonds: B:T.105 NAG.7: 3 residues within 4Å: Chain B: T.105, N.107, W.292 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.107

1 x MAN: alpha-D-mannopyranose(Non-functional Binders)

MAN.5: 1 residues within 4Å: Ligands: NAG.4 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakanishi, H. et al., Transport Cycle of Plasma Membrane Flippase ATP11C by Cryo-EM. Cell Rep (2020)

Release Date

2020-09-30

Peptides

ATP11C: A
CDC50A: 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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ATP11C

CDC50A

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