SMTL ID : 7oh4.1

Cryo-EM structure of Drs2p-Cdc50p in the E1 state with PI4P and Mg2+ bound

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

2 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: 6 residues within 4Å: Chain B: Y.215, N.216, T.218, N.288, A.291 Ligands: NAG-NAG.2 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.216 NAG-NAG.2: 3 residues within 4Å: Chain B: D.214, N.216 Ligands: NAG-NAG.1 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- BMA: beta-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-BMA.3: 8 residues within 4Å: Chain B: N.199, P.245, N.246, K.249, N.305, Y.306, P.307, L.310 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:P.307, B:L.310

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(Covalent)

2Y5.4: 13 residues within 4Å: Chain A: F.1031, G.1096, I.1099, N.1100, F.1103, A.1106, K.1149, R.1219, W.1223, K.1224, K.1227, Y.1235, H.1236 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.1031, A:F.1103, A:A.1106, A:R.1219, A:W.1223 Hydrogen bonds: A:K.1224, A:Y.1235 Salt bridges: A:K.1149, A:R.1219, A:K.1224, A:H.1236

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 3 residues within 4Å: Chain A: D.560, T.562, D.954 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.560, A:T.562, A:D.954, H2O.1, H2O.1, H2O.1

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

NAG.6: 4 residues within 4Å: Chain B: K.235, N.237, S.239, D.240 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.237, B:S.239, B:S.239

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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