SMTL ID : 5olh.1

Structure of the A2A-StaR2-bRIL562-Vipadenant complex at 2.6A obtained from in meso soaking experiments.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

1 x 9XT: 3-[(4-azanyl-3-methyl-phenyl)methyl]-7-(furan-2-yl)-[1,2,3]triazolo[4,5-d]pyrimidin-5-amine(Non-covalent)

9XT.1: 14 residues within 4Å: Chain A: Y.19, A.73, I.76, L.95, F.178, E.179, M.187, W.352, L.355, H.356, N.359, M.376, Y.377, I.380 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:A.73, A:I.76, A:L.95, A:W.352, A:L.355, A:M.376, A:Y.377, A:I.380, A:I.380, A:I.380 Hydrogen bonds: A:Y.19, A:N.359, A:N.359 Salt bridges: A:E.179 pi-Stacking: A:F.178, A:F.178

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

OLA.2: 7 residues within 4Å: Chain A: I.135, W.139, F.143, A.144, L.151 Ligands: OLC.24, OLC.26 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.135, A:F.143, A:F.143, A:F.143 OLA.7: 8 residues within 4Å: Chain A: F.54, F.103, A.107, I.110, I.114, V.126, I.134, C.138 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.110, A:I.110, A:I.134 OLA.8: 7 residues within 4Å: Chain A: G.15, L.373, Y.377, L.378, V.381, L.382 Ligands: OLA.17 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.377, A:V.381, A:L.382 OLA.9: 4 residues within 4Å: Chain A: I.137, L.141 Ligands: OLA.15, OLC.26 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.137, A:L.141 OLA.10: 2 residues within 4Å: Chain A: P.372 Ligands: CLR.5 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:P.372 OLA.11: 5 residues within 4Å: Chain A: L.29, L.32, G.33, L.36, F.392 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.29, A:F.392 OLA.12: 1 residues within 4Å: Chain A: W.374 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.374, A:W.374 OLA.13: 2 residues within 4Å: Ligands: OLC.22, OLC.27 No protein-ligand interaction detected (PLIP) OLA.14: 5 residues within 4Å: Chain A: V.35, C.38, W.39, W.42 Ligands: OLC.25 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.35, A:W.39, A:W.39, A:W.39, A:W.42 Hydrogen bonds: A:W.42 OLA.15: 6 residues within 4Å: Chain A: R.130, G.133, I.134, I.137, V.140 Ligands: OLA.9 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.137, A:V.140 OLA.16: 2 residues within 4Å: Chain A: I.393 Ligands: OLA.17 No protein-ligand interaction detected (PLIP) OLA.17: 8 residues within 4Å: Chain A: V.22, L.29, T.385, V.388, V.389, F.392 Ligands: OLA.8, OLA.16 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.22, A:L.29, A:T.385, A:V.388, A:V.389, A:F.392, A:F.392 OLA.18: 3 residues within 4Å: Chain A: A.342, G.346 Ligands: OLA.19 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.342 OLA.19: 9 residues within 4Å: Chain A: L.200, L.204, Y.207, F.211, A.342, A.345, G.346 Ligands: CLR.6, OLA.18 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.204, A:Y.207, A:Y.207, A:F.211, A:A.342, A:A.345 OLA.28: 4 residues within 4Å: Chain A: S.17, I.20, T.21, V.28 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.20, A:T.21, A:V.28

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

NA.3: 2 residues within 4Å: Chain A: D.62, S.101 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.101, A:S.101, A:N.386

3 x CLR: CHOLESTEROL(Non-covalent)

CLR.4: 9 residues within 4Å: Chain A: F.72, A.82, A.83, G.86, F.89, I.90 Ligands: OLC.23, OLC.24, OLC.25 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.72, A:A.82, A:F.89, A:I.90 Hydrogen bonds: A:A.83 CLR.5: 9 residues within 4Å: Chain A: L.353, P.354, I.358, F.361, C.368, S.369, A.371, L.375 Ligands: OLA.10 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.353, A:P.354, A:P.354, A:I.358, A:F.361, A:L.375 Hydrogen bonds: A:S.369 CLR.6: 8 residues within 4Å: Chain A: F.192, L.197, C.360, F.361, F.364, C.365 Ligands: OLA.19, OLC.20 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.192, A:L.197, A:F.361, A:F.361, A:F.361, A:F.364

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

OLC.20: 4 residues within 4Å: Chain A: F.193, F.364 Ligands: CLR.6, OLC.21 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.193, A:F.364 Hydrogen bonds: A:F.364 OLC.21: 5 residues within 4Å: Chain A: Y.189, F.193, L.197, V.198 Ligands: OLC.20 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.193, A:F.193, A:L.197, A:V.198 Hydrogen bonds: A:Y.189 OLC.22: 3 residues within 4Å: Ligands: OLA.13, OLC.23, OLC.27 No protein-ligand interaction detected (PLIP) OLC.23: 8 residues within 4Å: Chain A: V.67, P.71, F.72, T.75, F.80 Ligands: CLR.4, OLC.22, OLC.27 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.67, A:P.71, A:F.72, A:T.75, A:F.80, A:F.80 OLC.24: 11 residues within 4Å: Chain A: Y.53, L.64, L.68, F.93, G.128, I.135, W.139, F.143 Ligands: OLA.2, CLR.4, OLC.25 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.64, A:L.68, A:F.93, A:W.139, A:W.139, A:F.143, A:F.143 Hydrogen bonds: A:G.128 OLC.25: 10 residues within 4Å: Chain A: C.38, W.42, Q.48, Y.53, V.56, A.60, L.64 Ligands: CLR.4, OLA.14, OLC.24 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.56, A:L.64 Hydrogen bonds: A:Y.53 OLC.26: 8 residues within 4Å: Chain A: H.85, V.140, L.141, M.150, L.151, G.152 Ligands: OLA.2, OLA.9 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.140, A:L.141, A:L.151 Salt bridges: A:H.85 OLC.27: 7 residues within 4Å: Chain A: P.71, T.75, T.78, F.80 Ligands: OLA.13, OLC.22, OLC.23 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:P.71, A:T.75 Hydrogen bonds: A:T.78, A:T.78

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rucktooa, P. et al., Towards high throughput GPCR crystallography: In Meso soaking of Adenosine A2A Receptor crystals. Sci Rep (2018)

Release Date

2018-01-17

Peptides

Adenosine receptor A2a,Soluble cytochrome b562,Adenosine receptor A2a: 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,Soluble cytochrome b562,Adenosine receptor A2a

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