SMTL ID : 8pda.1

cryo-EM structure of Doa10 with RING domain in MSP1E3D1

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

3 x PCW: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

PCW.1: 6 residues within 4Å: Chain A: V.585, C.589, K.621, K.625, T.628, M.728 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.585 Hydrogen bonds: A:M.728 Salt bridges: A:K.621, A:K.621, A:K.625 PCW.2: 19 residues within 4Å: Chain A: W.149, G.153, K.154, Y.178, F.201, Q.205, I.209, L.212, H.213, L.487, S.490, Y.491, H.568, I.570, R.573, A.574, L.578, Y.581, V.585 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:I.209, A:L.212, A:L.487, A:I.570, A:A.574, A:L.578, A:Y.581, A:V.585 Salt bridges: A:K.154 PCW.3: 15 residues within 4Å: Chain A: I.653, L.654, W.688, K.691, Y.692, M.695, L.790, T.793, K.794, K.804, L.807, M.980, V.983, T.984, S.1037 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:I.653, A:L.654, A:Y.692, A:T.793, A:K.794, A:M.980, A:V.983 Salt bridges: A:K.804, A:K.804

1 x PX6: 1,2-DIPALMITOYL-SN-GLYCERO-3-PHOSPHATE(Non-covalent)

PX6.4: 13 residues within 4Å: Chain A: I.693, V.705, F.708, I.709, I.741, Y.742, F.745, F.827, R.962, Y.965, L.968, L.969, V.972 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:I.693, A:F.708, A:I.709, A:I.741, A:Y.742, A:F.745, A:L.969, A:V.972 Salt bridges: A:R.962

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Botsch, J.J. et al., Doa10/MARCH6 architecture interconnects E3 ligase activity with lipid-binding transmembrane channel to regulate SQLE. Nat Commun (2024)

Release Date

2024-01-17

Peptides

ERAD-associated E3 ubiquitin-protein ligase DOA10: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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ERAD-associated E3 ubiquitin-protein ligase DOA10

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