SMTL ID : 6ps3.1

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x CVD: (2S)-1-(8H-CARBAZOL-4-YLOXY)-3-[2-(2-METHOXYPHENOXY)ETHYLAMINO]PROPAN-2-OL(Non-covalent)

CVD.1: 23 residues within 4Å: Chain A: G.114, H.117, I.118, W.133, D.137, V.138, V.141, T.142, C.215, F.217, T.219, Y.223, A.224, S.227, S.231, W.438, F.441, F.442, N.445, Y.460, N.464, W.465, Y.468 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:I.118, A:V.138, A:V.141, A:F.217, A:Y.223, A:Y.468 Hydrogen bonds: A:S.227, A:N.464, A:Y.468, 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 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.90, A:V.91, A:T.92, A:Y.165, A:S.167 Salt bridges: A:R.155 SO4.3: 4 residues within 4Å: Chain A: F.416, 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 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.367, 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: 10 residues within 4Å: Chain A: Y.94, T.97, S.98, C.101, V.105, R.175, I.178, L.179, W.182 Ligands: OLC.7 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.105, A:I.178, A:L.179, A:W.182, A:W.182 Hydrogen bonds: A:R.175

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

OLC.7: 4 residues within 4Å: Chain A: I.79, A.83, Q.89 Ligands: CLR.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.89 OLC.8: 7 residues within 4Å: Chain A: V.57, V.58, G.61, I.62, S.65, L.119, M.120 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.57, A:V.58, A:I.62 OLC.9: 3 residues within 4Å: Chain A: F.73, L.491 Ligands: OLA.13 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.73 OLC.10: 2 residues within 4Å: Chain A: L.492, L.494 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.492 OLC.11: 4 residues within 4Å: Chain A: V.150, V.153, F.157, L.169 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.153 Water bridges: A:L.168 OLC.12: 2 residues within 4Å: Chain A: W.146, V.184 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.146, A:V.184

4 x OLA: OLEIC ACID(Non-covalent)

OLA.13: 3 residues within 4Å: Chain A: T.80, L.108 Ligands: OLC.9 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.108 OLA.14: 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.15: 5 residues within 4Å: Chain A: V.240, S.244, G.428, G.432, T.435 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.240 OLA.16: 5 residues within 4Å: Chain A: M.64, I.67, E.458, W.465, V.469 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.67, A:W.465, A:W.465, A:V.469

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.
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Fusion protein of Beta-2 adrenergic receptor and T4 Lysozyme

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