SMTL ID : 8x94.1

Structure of human TRPV1 in complex with antagonist --protein purified without CHS

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

4 x EZI: 4-(7-Hydroxy-2-isopropyl-4-oxoquinazolin-3(4H)-yl)benzonitrile(Non-covalent)

EZI.1: 14 residues within 4Å: Chain A: Y.511, S.512, L.515, T.550, N.551, L.553, Y.554, T.556, R.557, G.563, A.566, V.567, W.698, Q.701 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.515, A:A.566 Hydrogen bonds: A:R.557 pi-Cation interactions: A:R.557 EZI.3: 15 residues within 4Å: Chain B: Y.511, S.512, L.515, T.550, N.551, L.553, Y.554, T.556, R.557, G.563, A.566, V.567, E.570, W.698, Q.701 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.515, B:A.566 Hydrogen bonds: B:R.557 pi-Cation interactions: B:R.557 EZI.5: 14 residues within 4Å: Chain C: Y.511, S.512, L.515, T.550, N.551, L.553, Y.554, T.556, R.557, G.563, A.566, V.567, W.698, Q.701 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:L.515, C:A.566 Hydrogen bonds: C:R.557 pi-Cation interactions: C:R.557 EZI.7: 15 residues within 4Å: Chain D: Y.511, S.512, L.515, T.550, N.551, L.553, Y.554, T.556, R.557, G.563, A.566, V.567, E.570, W.698, Q.701 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:L.515, D:L.553, D:A.566 Hydrogen bonds: D:R.557 pi-Cation interactions: D:R.557

4 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 8 residues within 4Å: Chain A: F.507, Y.511, L.515, F.543, A.546, T.550, L.574 Chain B: F.591 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.511, A:L.515, A:F.543, A:A.546, A:T.550, B:F.591 Hydrogen bonds: A:F.507 CLR.4: 8 residues within 4Å: Chain B: F.507, Y.511, L.515, F.543, A.546, T.550, L.574 Chain D: F.591 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: B:Y.511, B:L.515, B:F.543, B:A.546, B:T.550, D:F.591 Hydrogen bonds: B:F.507 CLR.6: 9 residues within 4Å: Chain A: F.591 Chain C: F.507, Y.511, L.515, F.543, A.546, L.547, T.550, L.574 8 PLIP interactions: 7 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:Y.511, C:L.515, C:F.543, C:A.546, C:L.547, C:T.550, A:F.591 Hydrogen bonds: C:F.507 CLR.8: 8 residues within 4Å: Chain D: F.507, Y.511, L.515, F.543, A.546, L.547, T.550, L.574 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:Y.511, D:L.515, D:F.543, D:A.546, D:L.547, D:T.550, D:L.574 Hydrogen bonds: D:F.507

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fan, J. et al., Structural basis of TRPV1 inhibition by SAF312 and cholesterol. Nat Commun (2024)

Release Date

2024-08-14

Peptides

Transient receptor potential cation channel subfamily V member 1,Green fluorescent protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Membrane

We predict this structure to be a membrane protein.
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Transient receptor potential cation channel subfamily V member 1,Green fluorescent protein

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