SMTL ID : 9hc0.1

Dark structure of the human metabotropic glutamate receptor 5 transmembrane domain bound to photoswitchable ligand alloswitch-1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.33 Å

Oligo State

monomer

Ligands

5 x OLA: OLEIC ACID(Non-covalent)

OLA.1: 9 residues within 4Å: Chain A: N.332, V.336, G.343, I.346, L.347, C.377, L.381, V.384, F.388 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.336, A:V.336, A:I.346, A:L.347, A:L.381, A:L.381, A:V.384, A:F.388 Hydrogen bonds: A:N.332 OLA.2: 7 residues within 4Å: Chain A: I.84, L.88, M.92, I.296, L.300, V.304, F.307 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.88, A:I.296, A:L.300 OLA.3: 9 residues within 4Å: Chain A: S.3, P.4, V.5, I.16, C.23, L.24, I.71, A.72, V.324 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:P.4, A:V.5, A:I.16, A:L.24 Hydrogen bonds: A:I.71 OLA.4: 6 residues within 4Å: Chain A: L.30, T.33, I.37, Y.54, A.58, C.61 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.30, A:T.33, A:I.37, A:Y.54, A:Y.54, A:A.58 OLA.5: 3 residues within 4Å: Chain A: V.5, L.8, V.20 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.8, A:V.20

1 x 4YI: 2-chloranyl-~{N}-[2-methoxy-4-[(~{E})-pyridin-2-yldiazenyl]phenyl]benzamide(Non-covalent)

4YI.6: 20 residues within 4Å: Chain A: G.59, I.60, I.86, S.89, P.90, S.93, Y.94, V.335, L.339, I.379, W.380, F.383, V.384, Y.387, F.388, M.397, S.400, V.401, S.404, A.405 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:I.86, A:P.90, A:V.335, A:L.339, A:L.339, A:V.384, A:Y.387, A:F.388, A:F.388, A:V.401 Hydrogen bonds: A:S.404 pi-Stacking: A:W.380

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kondo, Y. et al., Apo-state structure of the metabotropic glutamate receptor 5 transmembrane domain obtained using a photoswitchable ligand. Protein Sci. (2025)

Release Date

2025-06-25

Peptides

Metabotropic glutamate receptor 5,Endolysin: 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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Metabotropic glutamate receptor 5,Endolysin

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