SMTL ID : 8c9w.1

Crystal structure of the adenosine A2A receptor (construct A2A-PSB2-bRIL) complexed with Etrumadenant at the orthosteric pocket

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.11 Å

Oligo State

monomer

Ligands

1 x U30: 3-[2-azanyl-6-[1-[[6-(2-oxidanylpropan-2-yl)pyridin-2-yl]methyl]-1,2,3-triazol-4-yl]pyrimidin-4-yl]-2-methyl-benzenecarbonitrile(Non-covalent)

U30.1: 21 residues within 4Å: Chain A: Y.18, A.72, I.75, S.76, V.93, L.94, T.97, L.176, F.177, E.178, M.183, M.186, N.190, W.351, L.354, H.355, N.358, L.372, M.375, Y.376, I.379 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:Y.18, A:V.93, A:F.177, A:W.351, A:W.351, A:L.354, A:L.372, A:Y.376, A:I.379 Hydrogen bonds: A:T.97, A:N.358, A:N.358 Salt bridges: A:E.178 pi-Stacking: A:F.177

3 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 11 residues within 4Å: Chain A: L.67, F.71, F.79, A.81, A.82, G.85, C.86, F.88, I.89, Q.172 Ligands: OLC.9 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.71, A:F.71, A:F.79, A:A.82, A:I.89 Hydrogen bonds: A:A.82 CLR.3: 12 residues within 4Å: Chain A: L.349, L.352, P.353, I.356, I.357, F.360, C.367, S.368, H.369, A.370, P.371, L.374 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.349, A:L.352, A:P.353, A:I.356, A:I.357, A:F.360, A:A.370 Hydrogen bonds: A:S.368 CLR.4: 11 residues within 4Å: Chain A: F.191, F.192, L.196, L.352, I.356, C.359, F.360, F.363, C.364, C.367 Ligands: OLC.11 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.191, A:L.352, A:F.360, A:F.360, A:F.360, A:F.363, A:F.363

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

OLA.5: 8 residues within 4Å: Chain A: L.23, P.70, I.73, T.74, T.77, F.79 Ligands: OLA.6, OLC.9 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:P.70 OLA.6: 2 residues within 4Å: Ligands: OLA.5, OLC.9 No protein-ligand interaction detected (PLIP) OLA.7: 10 residues within 4Å: Chain A: F.53, F.102, L.105, A.106, I.109, D.110, I.113, V.125, I.133, C.137 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:A.106, A:I.109, A:I.109, A:I.133, A:I.133 Hydrogen bonds: A:D.110 OLA.8: 7 residues within 4Å: Chain A: W.138, V.139, F.142, A.143, L.146, M.149, L.150 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.139, A:F.142, A:F.142, A:L.146 OLA.13: 11 residues within 4Å: Chain A: G.14, V.17, Y.18, V.21, L.372, W.373, Y.376, L.377, V.380, L.381, T.384 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.376, A:Y.376, A:V.380, A:L.381, A:T.384 Water bridges: A:P.11, A:G.14

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

OLC.9: 11 residues within 4Å: Chain A: V.66, L.67, P.70, F.71, T.74, F.79, C.80, Q.172 Ligands: CLR.2, OLA.5, OLA.6 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.67, A:P.70, A:F.71, A:T.74 Hydrogen bonds: A:C.80 OLC.11: 4 residues within 4Å: Chain A: F.192, L.196, F.363 Ligands: CLR.4 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.192, A:F.363, A:F.363 Hydrogen bonds: A:F.363

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

OLB.10: 9 residues within 4Å: Chain A: C.37, V.40, W.41, Q.47, Y.52, V.55, A.59, I.62, A.63 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.59, A:I.62, A:A.63

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

PEG.12: 5 residues within 4Å: Chain A: T.128, R.129, G.132, I.133, I.136 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Claff, T. et al., Crystal structure of adenosine A 2A receptor in complex with clinical candidate Etrumadenant reveals unprecedented antagonist interaction. Commun Chem (2023)

Release Date

2023-07-12

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