SMTL ID : 9k20.1

Cryo-EM structure of ATP-bound P2Y purinoceptor 2-miniGo-scFv16 complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 2.65 Å

Oligo State

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

Ligands

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 15 residues within 4Å: Chain A: Y.47, C.49, F.51, E.53, K.56, Y.117, D.121, R.134, H.208, D.209, T.210, Y.292, R.296, K.313, R.316 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:E.53, A:D.121, A:R.134, A:D.209, A:D.209, A:T.210, A:Y.292, A:R.296 Salt bridges: A:K.56, A:H.208, A:R.296, A:R.296, A:K.313, A:K.313, A:R.316, A:R.316 pi-Stacking: A:Y.47, A:Y.47, A:F.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lan, B. et al., Structural insight into the self-activation and G-protein coupling of P2Y2 receptor. Cell Discov (2025)

Release Date

2025-06-11

Peptides

P2Y purinoceptor 2: A
Guanine nucleotide-binding protein G(o) subunit alpha: 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
Single Fab chain (svFv16): 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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P2Y purinoceptor 2

Guanine nucleotide-binding protein G(o) subunit alpha

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

Single Fab chain (svFv16)

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