SMTL ID : 6ps6.1

XFEL beta2 AR structure by ligand exchange from Timolol to Timolol.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

1 x TIM: (2S)-1-(tert-butylamino)-3-[(4-morpholin-4-yl-1,2,5-thiadiazol-3-yl)oxy]propan-2-ol(Non-covalent)

TIM.1: 18 residues within 4Å: Chain A: W.133, T.134, D.137, V.138, V.141, T.142, F.217, Y.223, S.227, S.228, S.231, W.438, F.441, F.442, N.445, Y.460, N.464, Y.468 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.133, A:T.134, A:F.217 Hydrogen bonds: A:D.137, A:N.445, A:N.464, A:Y.468 pi-Stacking: A:F.442

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 7 residues within 4Å: Chain A: T.90, V.91, T.92, R.155, Y.165, Q.166, S.167 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:T.90, A:V.91, A:T.92, A:T.92, A:Y.165, A:S.167 Salt bridges: A:R.155 SO4.3: 3 residues within 4Å: Chain A: K.422, K.425, R.480 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:K.422, A:K.425, A:R.480 SO4.4: 5 residues within 4Å: Chain A: F.367, T.368, N.369, S.370, N.385 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:F.367, A:N.369, A:N.369, A:S.370, A:N.385 SO4.5: 4 residues within 4Å: Chain A: T.395, P.396, N.397, R.398 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.397, A:R.398

1 x CLR: CHOLESTEROL(Non-covalent)

CLR.6: 7 residues within 4Å: Chain A: Y.94, T.97, S.98, C.101, I.178, W.182 Ligands: OLC.9 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:W.182

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

OLC.7: 5 residues within 4Å: Chain A: W.146, I.177, M.180, V.181, V.184 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.146, A:W.146, A:W.146, A:I.177, A:M.180, A:V.181, A:V.184 OLC.8: 6 residues within 4Å: Chain A: V.150, V.153, D.154, F.157, L.168, L.169 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.150, A:V.153 OLC.9: 6 residues within 4Å: Chain A: I.79, Q.89, T.97, C.101 Ligands: CLR.6, OLC.11 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.79 Hydrogen bonds: A:Q.89, A:Q.89, A:T.97 OLC.10: 7 residues within 4Å: Chain A: L.69, F.73, V.76, T.80, L.491 Ligands: OLC.12, OLA.14 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.69, A:F.73, A:F.73, A:T.80 OLC.11: 6 residues within 4Å: Chain A: V.76, I.79, T.80, A.83 Ligands: OLC.9, OLA.14 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.76, A:I.79, A:A.83 OLC.12: 2 residues within 4Å: Chain A: L.492 Ligands: OLC.10 No protein-ligand interaction detected (PLIP) OLC.13: 5 residues within 4Å: Chain A: F.247, K.425, G.428, G.432, T.433 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.433

4 x OLA: OLEIC ACID(Non-covalent)

OLA.14: 4 residues within 4Å: Chain A: T.80, L.108 Ligands: OLC.10, OLC.11 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.108 Hydrogen bonds: A:T.80 OLA.15: 3 residues within 4Å: Chain A: Y.156, F.241, V.242 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.241 Salt bridges: A:R.245 OLA.16: 3 residues within 4Å: Chain A: M.64, W.465, V.469 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.465, A:V.469 OLA.17: 5 residues within 4Å: Chain A: V.240, S.244, F.247, G.432, T.435 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.240, A:F.247

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ishchenko, A. et al., Toward G protein-coupled receptor structure-based drug design using X-ray lasers. Iucrj (2019)

Release Date

2019-11-13

Peptides

Fusion protein of Beta-2 adrenergic receptor and T4 Lysozyme: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Fusion protein of Beta-2 adrenergic receptor and T4 Lysozyme

Related Entries With Identical Sequence