SMTL ID : 9ekh.1

Cryo-EM structure ONO3030297-bound prostaglandin D2 receptor (DP1)-bRIL-Fab complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 2.89 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 5 residues within 4Å: Chain A: P.30, Y.32, R.33, Q.35, N.36 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.30 Hydrogen bonds: A:Q.35, A:N.36

1 x 01: 1-[2-chloro-5-(2,6-dimethyl-4-{[(2S)-4-methyl-3,4-dihydro-2H-1,4-benzoxazin-2-yl]methoxy}benzamido)phenyl]cyclopropane-1-carboxylic acid

01.2: 13 residues within 4Å: Chain A: S.45, D.98, G.101, L.105, S.106, M.138, F.141, W.208, R.425, L.427, S.428, S.431, I.432 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.105, A:W.208, A:I.432 Hydrogen bonds: A:S.428, A:S.428, A:S.431 Salt bridges: A:K.42, A:R.425

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Davoudinasab, B. et al., Structural insights into mechanism of activation and deactivation of prostaglandin receptors. To Be Published

Release Date

2025-09-03

Peptides

Prostaglandin D2 receptor,Soluble cytochrome b562: A
anti-BRIL Fab Heavy Chain: B
anti-Fab Nanobody: C
anti-BRIL Fab Light Chain: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
K

D
L

Membrane

We predict this structure to be a membrane protein.
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Prostaglandin D2 receptor,Soluble cytochrome b562

anti-BRIL Fab Heavy Chain

anti-Fab Nanobody

anti-BRIL Fab Light Chain

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