SMTL ID : 8u3a.1

TRPV1 in nanodisc bound with PI-Br4 bound in Conformation 1 (monomer)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

1 x VPN: (2S)-2-[(9,10-dibromooctadecanoyl)oxy]-3-{[(S)-hydroxy{[(1S,2R,3R,4S,5S,6R)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9R,10S)-9,10-dibromooctadecanoate

VPN.1: 31 residues within 4Å: Chain A: R.303, H.304, V.402, D.403, S.404, Y.405, S.406, L.409, F.410, F.437, A.440, M.441, T.444, N.445, L.447, Y.448, R.451, E.464, K.465, I.467, L.468, I.567, L.570, Q.571, I.574 Chain B: F.481, F.485, I.532, L.533, A.536, L.540 28 PLIP interactions: 7 interactions with chain B, 21 interactions with chain A Hydrophobic interactions: B:F.481, B:F.485, B:F.485, B:I.532, B:L.533, B:A.536, B:L.540, A:Y.405, A:L.409, A:F.437, A:F.437, A:A.440, A:T.444, A:L.447, A:L.447, A:E.464, A:I.467, A:L.468 Hydrogen bonds: A:H.304, A:D.403, A:S.404, A:Y.405, A:S.406, A:S.406, A:E.464, A:K.465, A:Q.571 Salt bridges: A:R.451

1 x PCW: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

PCW.2: 18 residues within 4Å: Chain A: F.330, N.331, V.334, Y.335, L.337, Y.338, I.341, L.374, S.377, G.378, Y.381, F.382, R.385, S.406, E.407, F.410, Y.448, Y.449 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.334, A:L.337, A:Y.381 Salt bridges: A:R.385, A:E.407 pi-Cation interactions: A:F.410, A:Y.448

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

NA.3: 2 residues within 4Å: Chain A: G.514 Chain B: G.514 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.514

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: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

Membrane

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

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