SMTL ID : 8rw7.1

Crystal structure of the adenosine A2A receptor in complex with the synthetic photoswitch 'StilSwitch1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

monomer

Ligands

1 x 01: 8-[(~{E})-2-(3,4-dimethoxyphenyl)ethenyl]-1,3-diethyl-7~{H}-purine-2,6-dione

01.1: 14 residues within 4Å: Chain A: I.91, S.92, V.109, L.110, F.193, E.194, M.202, W.367, L.370, N.374, L.388, M.391, Y.392, I.395 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:I.91, A:F.193, A:E.194, A:W.367, A:L.370, A:L.388 Hydrogen bonds: A:N.374 pi-Stacking: A:F.193, A:F.193

3 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 8 residues within 4Å: Chain A: F.87, A.97, A.98, G.101, F.104, I.105 Ligands: OLC.16, OLA.23 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.87, A:F.87, A:F.104, A:I.105 Hydrogen bonds: A:A.98 CLR.3: 9 residues within 4Å: Chain A: L.212, I.372, C.375, F.376, F.379, C.380 Ligands: OLA.8, OLA.12, OLA.20 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.212, A:I.372, A:F.376, A:F.376, A:F.376, A:F.379 Water bridges: A:F.379 CLR.4: 11 residues within 4Å: Chain A: L.365, L.368, P.369, I.373, F.376, C.383, S.384, A.386, L.390 Ligands: OLA.8, OLA.21 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.365, A:L.368, A:P.369, A:I.373, A:F.376, A:L.390 Hydrogen bonds: A:S.384 Water bridges: A:S.384

22 x OLA: OLEIC ACID(Non-covalent)(Non-functional Binders)

OLA.5: 6 residues within 4Å: Chain A: C.366, V.404, F.407, I.408, Y.411 Ligands: OLA.6 Ligand excluded by PLIP OLA.6: 7 residues within 4Å: Chain A: I.41, T.400, V.403, V.404, F.407 Ligands: OLA.5, OLA.9 Ligand excluded by PLIP OLA.7: 6 residues within 4Å: Chain A: F.69, A.122, I.125, D.126, I.149, C.153 Ligand excluded by PLIP OLA.8: 5 residues within 4Å: Chain A: I.372, F.376, C.383 Ligands: CLR.3, CLR.4 Ligand excluded by PLIP OLA.9: 4 residues within 4Å: Chain A: G.30, W.389, Y.392 Ligands: OLA.6 Ligand excluded by PLIP OLA.10: 4 residues within 4Å: Chain A: S.32, T.36, L.39 Ligands: OLC.28 Ligand excluded by PLIP OLA.11: 8 residues within 4Å: Chain A: V.82, P.86, T.90, T.93, F.95 Ligands: OLA.13, OLC.16, OLC.28 Ligand excluded by PLIP OLA.12: 4 residues within 4Å: Chain A: L.212, F.379 Ligands: CLR.3, OLB.15 Ligand excluded by PLIP OLA.13: 2 residues within 4Å: Ligands: OLA.11, OLC.28 Ligand excluded by PLIP OLA.17: 6 residues within 4Å: Chain A: L.44, L.47, G.48, V.50, L.51, F.407 Ligand excluded by PLIP OLA.18: 6 residues within 4Å: Chain A: V.50, C.53, W.54, W.57, I.78 Ligands: OLA.24 Ligand excluded by PLIP OLA.19: 8 residues within 4Å: Chain A: A.147, I.150, A.151, V.155, F.158 Ligands: OLC.14, OLA.26, OLA.27 Ligand excluded by PLIP OLA.20: 9 residues within 4Å: Chain A: L.212, L.215, L.216, L.219, Y.222, A.357, A.360, G.361 Ligands: CLR.3 Ligand excluded by PLIP OLA.21: 4 residues within 4Å: Chain A: P.387, W.389, L.390 Ligands: CLR.4 Ligand excluded by PLIP OLA.22: 2 residues within 4Å: Chain A: I.152 Ligands: OLA.29 Ligand excluded by PLIP OLA.23: 6 residues within 4Å: Chain A: A.98, G.101, F.104 Ligands: CLR.2, OLA.26, OLA.27 Ligand excluded by PLIP OLA.24: 9 residues within 4Å: Chain A: C.53, V.56, W.57, V.71, A.75, I.78, L.79 Ligands: OLC.14, OLA.18 Ligand excluded by PLIP OLA.25: 1 residues within 4Å: Chain A: W.389 Ligand excluded by PLIP OLA.26: 7 residues within 4Å: Chain A: H.100, F.158, M.165 Ligands: OLA.19, OLA.23, OLA.27, OLA.30 Ligand excluded by PLIP OLA.27: 5 residues within 4Å: Chain A: F.158, L.162 Ligands: OLA.19, OLA.23, OLA.26 Ligand excluded by PLIP OLA.29: 3 residues within 4Å: Chain A: I.152, V.155 Ligands: OLA.22 Ligand excluded by PLIP OLA.30: 3 residues within 4Å: Chain A: M.165, L.166 Ligands: OLA.26 Ligand excluded by PLIP

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

OLC.14: 10 residues within 4Å: Chain A: Y.68, V.71, S.72, L.79, G.143, I.150, W.154, F.158 Ligands: OLA.19, OLA.24 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.71, A:L.79, A:I.150, A:W.154, A:W.154, A:F.158 Hydrogen bonds: A:G.143 OLC.16: 9 residues within 4Å: Chain A: V.82, L.83, F.87, T.90, F.95, C.96, Q.188 Ligands: CLR.2, OLA.11 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.82, A:L.83, A:F.87, A:T.90, A:F.95, A:F.95 Hydrogen bonds: A:C.96, A:C.96, A:Q.188, A:Q.188 OLC.28: 8 residues within 4Å: Chain A: P.27, I.28, S.31, L.39, T.93 Ligands: OLA.10, OLA.11, OLA.13 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.39 Hydrogen bonds: A:P.27, A:S.31, A:T.93

1 x OLB: (2S)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)

OLB.15: 4 residues within 4Å: Chain A: Y.204, L.212, F.379 Ligands: OLA.12 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.212 Water bridges: A:F.379

1 x NA: SODIUM ION(Non-functional Binders)

NA.31: 3 residues within 4Å: Chain A: D.77, S.116, N.401 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.116, A:N.401 Water bridges: A:D.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Glover, H. et al., Photoswitch dissociation from a G protein-coupled receptor resolved by time-resolved serial crystallography. Nat Commun (2024)

Release Date

2025-01-08

Peptides

Adenosine receptor A2a,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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Adenosine receptor A2a,Soluble cytochrome b562

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