SMTL ID : 6roi.1

Cryo-EM structure of the partially activated Drs2p-Cdc50p

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: 6 residues within 4Å: Chain B: Y.215, N.216, T.218, N.288, A.291 Ligands: NAG.5 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.216

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.2: 8 residues within 4Å: Chain B: N.195, N.199, P.245, N.246, K.249, Y.306, P.307, L.310 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:P.307, B:L.310

1 x MG: MAGNESIUM ION(Non-covalent)

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

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: 19 residues within 4Å: Chain A: V.454, V.457, L.458, W.1028, F.1031, Y.1092, G.1096, I.1099, F.1103, A.1106, I.1110, R.1219, D.1220, W.1223, K.1224, K.1227, E.1233, Y.1235, H.1236 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:V.454, A:V.457, A:L.458, A:W.1028, A:W.1028, A:F.1031, A:I.1099, A:I.1099 Hydrogen bonds: A:W.1223, A:E.1233, A:Q.1239 Salt bridges: A:K.1149, A:R.1219, A:R.1219, A:K.1224, A:H.1236

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

NAG.5: 3 residues within 4Å: Chain B: V.205, N.216 Ligands: NAG-NAG.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Timcenko, M. et al., Structure and autoregulation of a P4-ATPase lipid flippase. Nature (2019)

Release Date

2019-07-03

Peptides

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

Cell division control protein 50

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