SMTL ID : 7wc8.1

Crystal structure of serotonin 2A receptor in complex with lumateperone

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: E.207, D.211 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.207, A:D.211

4 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 8 residues within 4Å: Chain A: P.311, I.314, T.315, C.326, N.327, V.330, I.331, L.334 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.314, A:I.314, A:T.315, A:V.330, A:I.331 Hydrogen bonds: A:N.327 CLR.11: 5 residues within 4Å: Chain A: I.140, P.143, F.147 Ligands: OLC.4, OLC.12 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.140, A:P.143, A:F.147, A:F.147 CLR.13: 7 residues within 4Å: Chain A: I.27, I.30, M.31, S.34, L.35, M.55 Ligands: OLC.18 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.27, A:I.27, A:I.30 CLR.17: 13 residues within 4Å: Chain A: V.33, S.34, Q.40, Y.45, M.48, S.49, I.52, L.56, R.123, F.127, I.130, W.134 Ligands: OLC.18 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:Y.45, A:Y.45, A:I.52, A:L.56, A:F.127, A:I.130, A:W.134 Hydrogen bonds: A:S.34, A:Q.40, A:R.123

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.3: 5 residues within 4Å: Chain A: E.203, W.206, N.210, K.274, N.278 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.203, A:K.274

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

OLC.4: 14 residues within 4Å: Chain A: V.90, I.140, F.147, K.154, L.163, D.165, N.167, F.168, I.171, G.172, S.173, S.176, F.313 Ligands: CLR.11 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:N.167, A:F.168, A:F.168, A:I.171 Hydrogen bonds: A:S.176 OLC.5: 7 residues within 4Å: Chain A: P.78, S.79, K.80, L.81, V.84, Y.87, L.149 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:K.80, A:V.84, A:Y.87, A:L.149 Hydrogen bonds: A:S.79, A:S.79, A:K.80 OLC.6: 7 residues within 4Å: Chain A: N.9, S.11, T.15, I.69, G.72, Y.73, W.340 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:T.15, A:I.69, A:Y.73 Hydrogen bonds: A:N.9 Salt bridges: A:K.8 OLC.8: 6 residues within 4Å: Chain A: L.351, T.354, L.355, R.361 Ligands: OLC.9, OLC.10 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.354, A:L.355 Hydrogen bonds: A:R.361 OLC.9: 7 residues within 4Å: Chain A: L.351, T.354, R.361, F.364, S.365, I.368 Ligands: OLC.8 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.351, A:T.354, A:F.364, A:I.368 OLC.10: 1 residues within 4Å: Ligands: OLC.8 No protein-ligand interaction detected (PLIP) OLC.12: 6 residues within 4Å: Chain A: G.139, P.143, V.146, F.147, Q.150 Ligands: CLR.11 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.146 Hydrogen bonds: A:Q.150, A:Q.150 OLC.14: 7 residues within 4Å: Chain A: M.184, V.185, Y.188, F.189, G.299, F.303, V.306 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.185, A:V.306 OLC.15: 7 residues within 4Å: Chain A: W.98, C.101, L.105, D.106, K.129, A.132 Ligands: OLC.16 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.98, A:W.98 OLC.16: 5 residues within 4Å: Chain A: V.109, K.125, K.129, I.131 Ligands: OLC.15 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:K.125 OLC.18: 5 residues within 4Å: Chain A: S.34, I.52, M.55 Ligands: CLR.13, CLR.17 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.34, A:S.34

1 x 92S: 1-(4-fluorophenyl)-4-[(10~{R},15~{S})-4-methyl-1,4,12-triazatetracyclo[7.6.1.0^{5,16}.0^{10,15}]hexadeca-5,7,9(16)-trien-12-yl]butan-1-one(Non-covalent)

92S.7: 19 residues within 4Å: Chain A: W.85, D.89, V.90, S.93, T.94, I.97, L.162, L.163, S.176, F.177, F.305, W.309, F.312, F.313, N.316, L.335, N.336, V.339, Y.343 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:W.85, A:L.162, A:L.163, A:F.305, A:W.309 Salt bridges: A:D.89 pi-Stacking: A:W.309, A:F.312, A:F.313

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.19: 5 residues within 4Å: Chain A: T.43, N.44, A.294, V.297, N.357 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.44, A:N.357

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cao, D. et al., Structure-based discovery of nonhallucinogenic psychedelic analogs. Science (2022)

Release Date

2022-01-26

Peptides

5-hydroxytryptamine receptor 2A,5-hydroxytryptamine receptor 2A,Soluble cytochrome b562: 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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5-hydroxytryptamine receptor 2A,5-hydroxytryptamine receptor 2A,Soluble cytochrome b562

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