SMTL ID : 7mfi.1 (1 other biounit)

Bovine sigma-2 receptor bound to cholesterol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.81 Å

Oligo State

homo-dimer

Ligands

2 x CLR: CHOLESTEROL(Non-covalent)

CLR.1: 16 residues within 4Å: Chain A: H.27, I.30, M.34, D.35, W.55, Y.56, L.65, F.72, L.76, E.79, Q.83, T.116, L.117, V.152, Y.153, Y.156 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:I.30, A:W.55, A:Y.56, A:Y.56, A:Y.56, A:L.65, A:L.65, A:F.72, A:L.76, A:L.117, A:V.152, A:Y.153, A:Y.153, A:Y.156, A:Y.156 Hydrogen bonds: A:Q.83, A:Q.83 CLR.9: 14 residues within 4Å: Chain B: H.27, I.30, D.35, L.65, F.72, F.75, L.76, E.79, Q.83, T.116, L.117, V.152, Y.153, Y.156 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:L.65, B:F.72, B:L.76, B:L.117, B:V.152, B:Y.153, B:Y.153, B:Y.156 Hydrogen bonds: B:Q.83, B:T.116

10 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)(Non-functional Binders)

OLC.2: 7 residues within 4Å: Chain A: F.82, F.86, P.105, I.108, H.112 Chain B: I.118 Ligands: OLC.3 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.82, A:F.82, A:F.86, A:P.105, A:I.108, A:H.112, B:I.118 OLC.3: 3 residues within 4Å: Chain A: F.86, W.101 Ligands: OLC.2 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.86 OLC.4: 4 residues within 4Å: Chain A: L.80, V.81, L.84, P.85 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.80, A:L.84 OLC.5: 3 residues within 4Å: Chain A: L.25, Y.92, F.95 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.25, A:F.95 OLC.6: 6 residues within 4Å: Chain A: L.121, L.125, L.126, F.143, R.146 Ligands: OLC.7 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.121, A:L.125, A:L.126, A:F.143 OLC.7: 1 residues within 4Å: Ligands: OLC.6 No protein-ligand interaction detected (PLIP) OLC.8: 7 residues within 4Å: Chain A: A.70, K.73, S.74, F.77 Chain B: I.118, S.122, L.126 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:A.70, A:K.73, A:F.77, B:I.118, B:L.126 OLC.10: 6 residues within 4Å: Chain B: F.82, F.86, P.105, I.108, Y.109, H.112 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.86, B:I.108, B:Y.109 OLC.11: 7 residues within 4Å: Chain B: L.32, L.33, L.44, Y.45, P.46, L.49, L.80 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.32, B:Y.45, B:L.49, B:L.80 OLC.12: 6 residues within 4Å: Chain A: S.122, L.126 Chain B: A.70, K.73, S.74, F.77 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:L.126, B:A.70, B:K.73, B:F.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alon, A. et al., Structures of the sigma 2 receptor enable docking for bioactive ligand discovery. Nature (2021)

Release Date

2021-12-15

Peptides

Sigma intracellular receptor 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Sigma intracellular receptor 2

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