SMTL ID : 5nm2.1

A2A Adenosine receptor cryo structure

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

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

NA.1: 6 residues within 4Å: Chain A: L.57, D.61, S.100, F.347, N.385, S.386 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.61

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.2: 16 residues within 4Å: Chain A: V.93, L.94, L.176, F.177, E.178, M.183, M.186, W.351, L.354, H.355, N.358, H.369, L.372, M.375, Y.376, I.379 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.94, A:W.351, A:L.354, A:L.372, A:M.375 Hydrogen bonds: A:N.358, A:N.358 Water bridges: A:K.162, A:F.177, A:H.355, A:H.369 Salt bridges: A:E.178 pi-Stacking: A:F.177, A:F.177

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

OLA.3: 12 residues within 4Å: Chain A: L.23, I.30, V.66, P.70, I.73, T.74, T.77, F.79 Ligands: OLA.7, OLA.16, OLA.17, OLC.20 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.74, A:T.77 OLA.4: 5 residues within 4Å: Chain A: P.371, W.373, L.374, L.377 Ligands: CLR.23 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.371, A:W.373, A:L.377 OLA.5: 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 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.102, A:A.106, A:I.109, A:I.109, A:I.133 OLA.6: 13 residues within 4Å: Chain A: P.11, G.14, S.15, V.17, Y.18, V.21, I.25, S.76, L.372, W.373, Y.376, L.377, V.380 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.21, A:L.372, A:Y.376, A:L.377, A:V.380, A:V.380 Water bridges: A:Y.376 OLA.7: 4 residues within 4Å: Ligands: OLA.3, OLA.16, OLA.17, OLC.20 No protein-ligand interaction detected (PLIP) OLA.8: 9 residues within 4Å: Chain A: L.28, L.31, G.32, V.34, L.35, W.38, V.387, F.391, I.408 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.28, A:L.31, A:V.387, A:F.391 OLA.9: 7 residues within 4Å: Chain A: L.346, L.349, C.350, L.381, T.384, V.388, I.392 No protein-ligand interaction detected (PLIP) OLA.10: 8 residues within 4Å: Chain A: I.30, V.34, C.37, W.38, W.41, I.62, V.66 Ligands: OLB.19 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.34, A:W.41 Hydrogen bonds: A:W.41 OLA.11: 12 residues within 4Å: Chain A: L.196, L.199, L.200, L.203, Y.206, F.210, A.341, A.344, G.345, A.348, L.352 Ligands: CLR.24 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.196, A:L.200, A:L.203, A:Y.206, A:Y.206 OLA.12: 6 residues within 4Å: Chain A: I.12, S.16, I.19, T.20, L.23 Ligands: OLA.17 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.19 OLA.13: 6 residues within 4Å: Chain A: V.139, L.140, A.143, M.149, L.150 Ligands: OLA.14 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.139, A:A.143 Water bridges: A:M.149 Salt bridges: A:H.84 OLA.14: 9 residues within 4Å: Chain A: H.84, V.139, F.142, A.143, L.146, M.149, L.150 Ligands: OLA.13, OLA.15 No protein-ligand interaction detected (PLIP) OLA.15: 8 residues within 4Å: Chain A: A.131, I.134, A.135, W.138, V.139, F.142 Ligands: OLA.14, OLC.21 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.138, A:F.142, A:F.142 OLA.16: 3 residues within 4Å: Ligands: OLA.3, OLA.7, OLC.20 No protein-ligand interaction detected (PLIP) OLA.17: 10 residues within 4Å: Chain A: P.11, I.12, S.15, I.19, L.23, I.73, T.77 Ligands: OLA.3, OLA.7, OLA.12 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.19, A:T.77

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

OLB.18: 5 residues within 4Å: Chain A: F.192, L.196, L.200, F.363 Ligands: CLR.24 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.192, A:L.196, A:F.363, A:F.363, A:F.363 Hydrogen bonds: A:F.363 OLB.19: 12 residues within 4Å: Chain A: C.37, V.40, W.41, Q.47, Y.52, V.55, A.59, I.62, L.63 Ligands: OLA.10, OLC.21, CLR.22 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.55, A:A.59

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

OLC.20: 13 residues within 4Å: Chain A: V.66, L.67, P.70, F.71, T.74, F.79, C.80, I.89, Q.172 Ligands: OLA.3, OLA.7, OLA.16, CLR.22 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.66, A:L.67, A:P.70, A:F.71, A:F.71, A:T.74, A:F.79 Hydrogen bonds: A:C.80, A:Q.172 OLC.21: 15 residues within 4Å: Chain A: Y.52, V.55, S.56, A.59, L.63, F.92, G.127, T.128, A.130, A.131, I.134, W.138, F.142 Ligands: OLA.15, OLB.19 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.55, A:L.63, A:W.138, A:W.138, A:F.142 Hydrogen bonds: A:G.127

3 x CLR: CHOLESTEROL(Non-covalent)

CLR.22: 12 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: OLB.19, OLC.20 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.71, A:F.71, A:F.79, A:F.88, A:I.89, A:I.89 Hydrogen bonds: A:A.82 CLR.23: 13 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 Ligands: OLA.4 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.349, A:L.352, A:P.353, A:I.357, A:F.360, A:L.374 CLR.24: 12 residues within 4Å: Chain A: F.191, F.192, L.196, L.200, L.352, I.356, C.359, F.360, F.363, C.364 Ligands: OLA.11, OLB.18 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.196, A:I.356, A:F.360, A:F.360, A:F.360, A:F.363

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Weinert, T. et al., Serial millisecond crystallography for routine room-temperature structure determination at synchrotrons. Nat Commun (2017)

Release Date

2017-09-27

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.
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Adenosine receptor A2a,Soluble cytochrome b562,Adenosine receptor A2a

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