SMTL ID : 9dqh.1

CryoEM structure of Gq-coupled MRGPRD with a new agonist EP-2825

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-mer

Ligands

1 x 01: 2-({1-[2-(4-chlorophenyl)-2-methylpropanoyl]piperidin-4-yl}amino)-5,6,7,8-tetrahydroquinazolin-4(3H)-one

01.1: 17 residues within 4Å: Chain A: K.103, R.104, Y.107, N.158, T.161, C.165, C.176, D.180, M.181, Q.183, A.184, I.187, L.238, S.239, W.242, F.243, Y.246 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:Y.107, A:Y.107, A:T.161, A:D.180, A:Q.183, A:I.187, A:L.238, A:W.242, A:W.242 Hydrogen bonds: A:K.103, A:R.104, A:N.158, A:D.180 pi-Stacking: A:W.242

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, C. et al., High-affinity agonists reveal recognition motifs for the MRGPRD GPCR. Cell Rep (2024)

Release Date

2024-12-11

Peptides

Mas-related G-protein coupled receptor member D: A
Gs-mini-Gq chimera: B
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1: C
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2: D
scFv16: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Membrane

We predict this structure to be a membrane protein.
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Mas-related G-protein coupled receptor member D

Gs-mini-Gq chimera

Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1

Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2

scFv16

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