SMTL ID : 6lkn.1 (3 other biounits)

Crystal structure of ATP11C-CDC50A in PtdSer-bound E2P state

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.90 Å

Oligo State

hetero-1-1-mer

Ligands

2 x P5S: O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine(Non-covalent)

P5S.1: 6 residues within 4Å: Chain A: L.93, P.94, F.97, F.353, V.357, S.358 No protein-ligand interaction detected (PLIP) P5S.3: 14 residues within 4Å: Chain A: D.83, P.85, S.87, K.310, N.319, E.331, K.339, S.898 Chain B: H.131, R.132, R.133, K.136, K.155, E.158 9 PLIP interactions: 5 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:K.155, A:P.85 Salt bridges: B:R.132, B:R.132, B:R.133, B:K.136, A:K.310, A:K.339 Hydrogen bonds: A:E.331

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: D.409, D.816, G.817, N.819, D.820 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.816, A:D.820, H2O.1, H2O.1

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

NAG.4: 5 residues within 4Å: Chain B: N.176, N.180, N.235, N.298 Ligands: NAG.5 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.176, B:N.180, B:N.235, B:N.298, B:N.298 NAG.5: 3 residues within 4Å: Chain B: N.235 Ligands: NAG.4, AH2.6 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.235 NAG.7: 5 residues within 4Å: Chain B: T.105, E.184, F.186, W.292, N.294 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.294 NAG.8: 3 residues within 4Å: Chain B: N.107, R.290, W.292 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.107, B:R.290

1 x AH2: 1-deoxy-alpha-D-mannopyranose(Non-functional Binders)

AH2.6: 1 residues within 4Å: Ligands: NAG.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakanishi, H. et al., Crystal structure of a human plasma membrane phospholipid flippase. J.Biol.Chem. (2020)

Release Date

2020-06-10

Peptides

Phospholipid-transporting ATPase IG: 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 IG

Cell cycle control protein 50A

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