SMTL ID : 8u3j.1

TRPV1 in nanodisc bound with empty vanilloid binding pocket at 4C

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

4 x 3PH: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE(Non-covalent)

3PH.1: 18 residues within 4Å: Chain A: F.395, F.436, A.438, V.439, I.442, L.443, A.446, L.450 Chain C: Y.315, L.319, F.326, E.340, A.343, S.344, F.347, A.350, M.351, T.354 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:F.326, C:F.347, C:F.347 3PH.3: 18 residues within 4Å: Chain A: Y.315, L.319, F.326, E.340, A.343, S.344, F.347, A.350, M.351, T.354 Chain B: F.395, F.436, A.438, V.439, I.442, L.443, A.446, L.450 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.326, A:F.347, A:F.347 3PH.4: 18 residues within 4Å: Chain C: F.395, F.436, A.438, V.439, I.442, L.443, A.446, L.450 Chain D: Y.315, L.319, F.326, E.340, A.343, S.344, F.347, A.350, M.351, T.354 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:F.326, D:F.347, D:F.347 3PH.5: 18 residues within 4Å: Chain B: Y.315, L.319, F.326, E.340, A.343, S.344, F.347, A.350, M.351, T.354 Chain D: F.395, F.436, A.438, V.439, I.442, L.443, A.446, L.450 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.326, B:F.347, B:F.347

1 x NA: SODIUM ION(Non-functional Binders)

NA.2: 4 residues within 4Å: Chain A: G.424 Chain B: G.424 Chain C: G.424 Chain D: G.424 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:G.424

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arnold, W.R. et al., Structural basis of TRPV1 modulation by endogenous bioactive lipids. Nat.Struct.Mol.Biol. (2024)

Release Date

2024-05-08

Peptides

Transient receptor potential cation channel subfamily V member 1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

C
B

D
C

Membrane

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