SMTL ID : 8rvw.1

Dark structure of the human adenosine A2A receptor bound to synthetic photoswitch "StilSwitch3" determined by serial synchrotron crystallography

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

monomer

Ligands

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

OLA.1: 11 residues within 4Å: Chain A: Y.68, V.71, S.72, A.75, L.79, A.147, I.150, W.154, F.158 Ligands: OLA.16, OLA.20 Ligand excluded by PLIP OLA.2: 3 residues within 4Å: Chain A: Y.204, F.208, V.213 Ligand excluded by PLIP OLA.3: 3 residues within 4Å: Chain A: I.152, L.156, I.160 Ligand excluded by PLIP OLA.4: 5 residues within 4Å: Chain A: I.35, L.39, T.93 Ligands: OLA.14, OLA.17 Ligand excluded by PLIP OLA.9: 9 residues within 4Å: Chain A: G.30, V.33, Y.34, V.37, L.388, W.389, Y.392, L.393, V.396 Ligand excluded by PLIP OLA.10: 6 residues within 4Å: Chain A: A.98, H.100, G.101, F.104, M.165 Ligands: CLR.7 Ligand excluded by PLIP OLA.11: 10 residues within 4Å: Chain A: V.82, L.83, P.86, F.87, T.90, F.95, I.105 Ligands: CLR.7, OLA.13, OLA.14 Ligand excluded by PLIP OLA.12: 4 residues within 4Å: Chain A: F.208, L.212, F.379 Ligands: CLR.6 Ligand excluded by PLIP OLA.13: 3 residues within 4Å: Ligands: CLR.7, OLA.11, OLA.14 Ligand excluded by PLIP OLA.14: 14 residues within 4Å: Chain A: L.39, A.42, V.43, I.46, G.81, V.82, P.86, I.89, T.90, T.93, F.95 Ligands: OLA.4, OLA.11, OLA.13 Ligand excluded by PLIP OLA.15: 6 residues within 4Å: Chain A: S.384, P.387, W.389, L.390, L.393 Ligands: CLR.8 Ligand excluded by PLIP OLA.16: 7 residues within 4Å: Chain A: A.147, I.150, A.151, W.154, V.155, F.158 Ligands: OLA.1 Ligand excluded by PLIP OLA.17: 6 residues within 4Å: Chain A: S.32, I.35, T.36, L.39, A.40 Ligands: OLA.4 Ligand excluded by PLIP OLA.18: 8 residues within 4Å: Chain A: L.44, L.47, G.48, L.51, V.403, P.406, F.407, I.424 Ligand excluded by PLIP OLA.19: 1 residues within 4Å: Chain A: W.389 Ligand excluded by PLIP OLA.20: 9 residues within 4Å: Chain A: C.53, V.56, W.57, Y.68, V.71, A.75, I.78, L.79 Ligands: OLA.1 Ligand excluded by PLIP OLA.21: 6 residues within 4Å: Chain A: I.41, L.44, T.400, V.403, V.404, F.407 Ligand excluded by PLIP OLA.22: 6 residues within 4Å: Chain A: I.358, G.361, L.362, A.364, L.365 Ligands: OLA.24 Ligand excluded by PLIP OLA.23: 10 residues within 4Å: Chain A: V.65, F.69, F.118, L.121, A.122, I.125, D.126, I.129, V.141, I.149 Ligand excluded by PLIP OLA.24: 13 residues within 4Å: Chain A: L.212, L.215, L.216, M.218, L.219, Y.222, A.357, I.358, A.360, G.361, A.364 Ligands: CLR.6, OLA.22 Ligand excluded by PLIP

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

01.5: 15 residues within 4Å: Chain A: A.88, I.91, V.109, L.110, L.192, F.193, E.194, M.202, W.367, L.370, N.374, H.385, L.388, M.391, I.395 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:A.88, A:W.367, A:L.370 Hydrogen bonds: A:N.374 pi-Stacking: A:F.193, A:F.193

3 x CLR: CHOLESTEROL(Non-covalent)

CLR.6: 12 residues within 4Å: Chain A: F.207, F.208, L.212, L.216, L.368, I.372, C.375, F.376, F.379, C.380 Ligands: OLA.12, OLA.24 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.376, A:F.376, A:F.379 CLR.7: 13 residues within 4Å: Chain A: L.83, F.87, F.95, A.97, A.98, G.101, C.102, F.104, I.105, Q.188 Ligands: OLA.10, OLA.11, OLA.13 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.97, A:I.105, A:I.105 Hydrogen bonds: A:A.98 CLR.8: 13 residues within 4Å: Chain A: L.365, L.368, P.369, I.372, I.373, F.376, C.383, S.384, H.385, A.386, P.387, L.390 Ligands: OLA.15 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.368, A:P.369, A:I.372, A:I.373, A:F.376 Hydrogen bonds: A:S.384, A:S.384

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

NA.25: 5 residues within 4Å: Chain A: L.73, D.77, S.116, F.363, N.401 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.77, A:S.116 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,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.
Show / Hide

Adenosine receptor A2a,Adenosine receptor A2a,Soluble cytochrome b562

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