SMTL ID : 8u3c.1

TRPV1 in nanodisc bound with PI-Br4 bound in Conformation 2 (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: 29 residues within 4Å: Chain A: R.409, H.410, V.508, D.509, S.510, Y.511, S.512, L.515, F.516, V.518, F.522, M.547, T.550, N.551, L.553, Y.554, R.557, I.569, E.570, K.571, I.573, L.574, I.673, L.676, Q.677, I.680 Chain B: F.587, L.646 Ligands: 3PH.3 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:Y.511, A:Y.511, A:L.515, A:L.515, A:V.518, A:F.522, A:L.553, A:L.553, A:Y.554, A:E.570, A:I.573 Hydrogen bonds: A:H.410, A:H.410, A:D.509, A:S.510, A:Y.511, A:S.512, A:S.512, A:E.570, A:E.570, A:K.571, A:Q.677 Water bridges: A:E.570 Salt bridges: A:R.557

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

PCW.2: 18 residues within 4Å: Chain A: F.436, N.437, V.440, Y.441, L.443, Y.444, I.447, L.480, S.483, G.484, Y.487, F.488, R.491, S.512, E.513, F.516, Y.554, Y.555 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.440, A:Y.444, A:I.447, A:Y.487, A:Y.487 Hydrogen bonds: A:N.437 Salt bridges: A:R.491, A:E.513 pi-Cation interactions: A:F.516, A:Y.554

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

3PH.3: 13 residues within 4Å: Chain A: F.522, F.543, A.546, M.547, T.550 Chain B: F.591, A.634, V.635, I.638, L.639, A.642, L.646 Ligands: VPN.1 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:F.522, A:F.543, A:F.543, A:A.546, B:F.591, B:I.638, B:I.638

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

NA.4: 2 residues within 4Å: Chain A: G.620 Chain B: G.620 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.620

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.
Show / Hide

Transient receptor potential cation channel subfamily V member 1

Related Entries With Identical Sequence