SMTL ID : 7oh6.1

Cryo-EM structure of Drs2p-Cdc50p in the [PS]E2-AlFx state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 8 residues within 4Å: Chain B: D.214, Y.215, N.216, L.217, T.218, N.288, S.290 Ligands: NAG.7 No protein-ligand interaction detected (PLIP)

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.2: 6 residues within 4Å: Chain B: N.199, P.245, N.246, K.249, Y.306, L.310 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.310 Hydrogen bonds: B:N.246

1 x 2Y5: (2R)-1-{[(R)-hydroxy{[(1R,2R,3R,4R,5S,6R)-2,3,5,6-tetrahydroxy-4-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}-3-(octadecanoyloxy)propan-2-yl (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoate(Non-covalent)

2Y5.3: 13 residues within 4Å: Chain A: G.1096, I.1099, N.1100, A.1106, I.1110, K.1149, F.1215, R.1219, W.1223, K.1224, K.1227, Y.1235, H.1236 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:I.1099, A:A.1106, A:I.1110, A:F.1215 Hydrogen bonds: A:W.1223, A:W.1223, A:Y.1235, A:Y.1235 Salt bridges: A:K.1149, A:R.1219, A:R.1219, A:K.1224, A:H.1236

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.4: 12 residues within 4Å: Chain A: G.341, E.342, D.560, K.561, T.562, T.835, G.836, D.837, K.934, D.954, N.957 Ligands: MG.5 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.560

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 4 residues within 4Å: Chain A: D.560, T.562, D.954 Ligands: ALF.4 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.560, A:T.562, A:D.954, H2O.1, H2O.1

1 x Q3G: O-[(R)-[(2S)-2-(hexadecanoyloxy)-3-(octadecanoyloxy)propoxy](hydroxy)phosphoryl]-D-serine(Non-covalent)

Q3G.6: 16 residues within 4Å: Chain A: Q.237, T.245, T.249, T.250, T.253, P.507, I.508, S.509, V.512, T.513, L.516, N.1050, L.1051, F.1052, W.1056, F.1171 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:T.513, A:L.516, A:L.1051, A:L.1051, A:F.1052, A:F.1171 Hydrogen bonds: A:Q.237, A:T.249, A:S.509, A:N.1050

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

NAG.7: 4 residues within 4Å: Chain B: V.205, D.214, N.216 Ligands: NAG-NAG.1 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.214, B:D.214

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Timcenko, M. et al., Structural basis of substrate-independent phosphorylation in a P4-ATPase lipid flippase. J.Mol.Biol. (2021)

Release Date

2021-06-09

Peptides

Probable phospholipid-transporting ATPase DRS2,Probable phospholipid-transporting ATPase DRS2: A
Cell division control protein 50: 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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Probable phospholipid-transporting ATPase DRS2,Probable phospholipid-transporting ATPase DRS2

Cell division control protein 50

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