SMTL ID : 5vra.1

2.35-Angstrom In situ Mylar structure of human A2A adenosine receptor at 100 K

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

monomer

Ligands

1 x ZMA: 4-{2-[(7-amino-2-furan-2-yl[1,2,4]triazolo[1,5-a][1,3,5]triazin-5-yl)amino]ethyl}phenol(Non-covalent)

ZMA.1: 14 residues within 4Å: Chain A: L.110, F.193, E.194, M.199, M.202, W.367, L.370, H.371, N.374, H.385, L.388, M.391, Y.392, I.395 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.110, A:W.367, A:L.370, A:L.388 Hydrogen bonds: A:N.374, A:N.374 Water bridges: A:F.193, A:H.385 Salt bridges: A:E.194 pi-Stacking: A:F.193, A:F.193

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

NA.2: 5 residues within 4Å: Chain A: L.73, D.77, S.116, F.363, S.402 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.116 Water bridges: A:D.77

3 x CLR: CHOLESTEROL(Non-covalent)

CLR.3: 12 residues within 4Å: Chain A: L.365, L.368, P.369, I.372, I.373, F.376, C.383, S.384, A.386, P.387, L.390 Ligands: OLA.16 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, A:L.390 Hydrogen bonds: A:S.384 CLR.4: 10 residues within 4Å: Chain A: F.207, F.208, L.212, L.368, I.372, C.375, F.376, F.379, C.380 Ligands: OLC.6 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.212, A:L.368, A:F.376, A:F.376, A:F.376, A:F.379 CLR.5: 11 residues within 4Å: Chain A: L.83, F.87, F.95, A.97, A.98, G.101, F.104, I.105, Q.188 Ligands: OLC.7, OLC.8 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:A.97, A:A.98, A:F.104, A:I.105, A:I.105 Hydrogen bonds: A:A.98

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

OLC.6: 5 residues within 4Å: Chain A: F.208, L.212, F.379 Ligands: CLR.4, OLC.10 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.379 OLC.7: 10 residues within 4Å: Chain A: V.82, L.83, P.86, F.87, T.90, F.95, C.96 Ligands: CLR.5, OLA.12, OLA.13 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.82, A:P.86, A:T.90, A:F.95 OLC.8: 14 residues within 4Å: Chain A: Y.68, V.71, S.72, A.75, A.79, L.83, F.104, F.108, K.147, I.150, W.154, F.158 Ligands: CLR.5, OLB.22 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:A.75, A:L.83, A:F.104, A:F.108, A:W.154, A:W.154 Hydrogen bonds: A:Y.68, A:S.72 OLC.9: 3 residues within 4Å: Chain A: G.101, F.104, M.165 No protein-ligand interaction detected (PLIP) OLC.10: 8 residues within 4Å: Chain A: Y.204, F.208, L.212, V.213, L.216, F.379 Ligands: OLC.6, OLC.11 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.212, A:L.216 OLC.11: 5 residues within 4Å: Chain A: Y.204, F.208, A.209, V.213 Ligands: OLC.10 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.208 Hydrogen bonds: A:Y.204

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

OLA.12: 3 residues within 4Å: Ligands: OLC.7, OLA.13, OLA.14 No protein-ligand interaction detected (PLIP) OLA.13: 12 residues within 4Å: Chain A: L.39, I.46, V.82, P.86, I.89, T.90, T.93, F.95 Ligands: OLC.7, OLA.12, OLA.14, OLA.15 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.90 OLA.14: 3 residues within 4Å: Ligands: OLA.12, OLA.13, OLA.15 No protein-ligand interaction detected (PLIP) OLA.15: 5 residues within 4Å: Chain A: I.35, L.39, I.89 Ligands: OLA.13, OLA.14 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.39 OLA.16: 8 residues within 4Å: Chain A: S.384, H.385, A.386, P.387, W.389, L.390, L.393 Ligands: CLR.3 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.387, A:W.389 Hydrogen bonds: A:H.385 OLA.17: 11 residues within 4Å: Chain A: G.30, S.31, V.33, Y.34, V.37, S.92, L.388, W.389, Y.392, L.393, V.396 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.392, A:L.393, A:V.396 Hydrogen bonds: A:Y.392 OLA.18: 10 residues within 4Å: Chain A: F.69, F.118, L.121, A.122, I.125, D.126, I.129, V.141, I.149, C.153 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.118, A:A.122, A:I.125, A:I.149, A:I.149 OLA.19: 6 residues within 4Å: Chain A: I.41, L.44, T.400, V.403, V.404, F.407 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.44, A:T.400 OLA.20: 10 residues within 4Å: Chain A: L.44, L.47, G.48, V.50, L.51, W.54, V.403, F.407, I.424, V.428 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.47, A:F.407 Hydrogen bonds: A:L.47 OLA.21: 3 residues within 4Å: Chain A: S.32, T.36, L.39 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.36

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

OLB.22: 10 residues within 4Å: Chain A: C.53, V.56, W.57, Y.68, V.71, A.75, I.78, A.79, V.82 Ligands: OLC.8 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.78, A:V.82

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Broecker, J. et al., High-throughput in situ X-ray screening of and data collection from protein crystals at room temperature and under cryogenic conditions. Nat Protoc (2018)

Release Date

2017-12-13

Peptides

Adenosine receptor A2a,Soluble cytochrome b562 chimera: 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 chimera

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