SMTL ID : 7sqo.1

Structure of the orexin-2 receptor(OX2R) bound to TAK-925, Gi and scFv16

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

4 x OLA: OLEIC ACID(Non-covalent)(Non-functional Binders)

OLA.1: 7 residues within 4Å: Chain A: V.308, V.312, A.359, I.362, I.363, L.367 Ligands: OLA.2 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.359 OLA.2: 6 residues within 4Å: Chain A: R.304, V.308, L.311, V.312, I.315 Ligands: OLA.1 No protein-ligand interaction detected (PLIP) OLA.3: 12 residues within 4Å: Chain A: L.143, S.146, C.147, L.150, R.168, S.172, I.175, I.176, V.179, V.230, A.234, L.238 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.143, A:I.175 Salt bridges: A:R.168 OLA.4: 5 residues within 4Å: Chain A: L.150, W.153, Y.154, H.158, L.238 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:W.153

1 x A6F: methyl (2R,3S)-3-[(methanesulfonyl)amino]-2-({[(1s,4S)-4-phenylcyclohexyl]oxy}methyl)piperidine-1-carboxylate(Non-covalent)

A6F.5: 19 residues within 4Å: Chain A: C.107, A.110, T.111, V.114, W.120, P.131, Q.134, T.135, V.138, Q.187, F.227, T.231, Y.317, I.320, N.324, K.327, R.328, H.350, Y.354 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:P.131, A:Q.134, A:T.135, A:V.138, A:V.138, A:F.227, A:T.231, A:I.320 Hydrogen bonds: A:Q.134, A:Q.134, A:N.324

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yin, J. et al., Molecular mechanism of the wake-promoting agent TAK-925. Nat Commun (2022)

Release Date

2022-05-25

Peptides

Orexin receptor type 2: A
Guanine nucleotide-binding protein G(i) subunit alpha-1: 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
scFv-16: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
R

B
A

C
B

D
G

E
E

Membrane

We predict this structure to be a membrane protein.
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Orexin receptor type 2

Guanine nucleotide-binding protein G(i) subunit alpha-1

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

scFv-16

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