SMTL ID : 6li1.1

Crystal structure of GPR52 ligand free form with flavodoxin fusion

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

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

OLC.1: 3 residues within 4Å: Chain A: T.67, Y.70, F.74 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.70, A:F.74 Hydrogen bonds: A:T.67 OLC.4: 2 residues within 4Å: Chain A: R.377, V.423 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.423 Salt bridges: A:R.377

1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.2: 18 residues within 4Å: Chain A: G.229, S.230, T.231, T.232, G.233, N.234, T.235, S.278, T.279, W.280, G.281, C.313, G.314, D.315, W.318, Y.320, F.321, C.322 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:W.280, A:W.280, A:W.318 Hydrogen bonds: A:T.231, A:T.232, A:N.234, A:N.234, A:T.235, A:S.278, A:S.278, A:T.279, A:T.279, A:D.315, A:Y.320, A:C.322 pi-Stacking: A:W.318, A:W.318

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 3 residues within 4Å: Chain A: T.60, P.140, L.143 No protein-ligand interaction detected (PLIP)

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.5: 8 residues within 4Å: Chain A: V.49, F.50, H.57, I.65, Y.371, Y.425, D.429, F.432 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.57, A:Y.371

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lin, X. et al., Structural basis of ligand recognition and self-activation of orphan GPR52. Nature (2020)

Release Date

2020-02-26

Peptides

Chimera of G-protein coupled receptor 52 and Flavodoxin: 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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Chimera of G-protein coupled receptor 52 and Flavodoxin