SMTL ID : 7xj1.1

Structure of human TRPV3_G573S in complex with Trpvicin in C2 symmetry

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

10 x 6OU: [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate(Non-covalent)(Non-functional Binders)

6OU.1: 9 residues within 4Å: Chain A: L.591, Y.594, I.595, L.598, S.626, V.629, L.630, F.633 Ligands: 6OU.4 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.591, A:Y.594, A:I.595, A:L.598, A:V.629, A:L.630, A:F.633, A:F.633, A:F.633 6OU.4: 4 residues within 4Å: Chain A: L.630, F.633 Ligands: 6OU.1, 6OU.7 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.630, A:F.633 6OU.5: 7 residues within 4Å: Chain A: I.652, L.655, I.659, T.660, I.663 Ligands: EQK.13, 6OU.15 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.652, A:L.655, A:I.659, A:I.663 6OU.7: 5 residues within 4Å: Chain A: I.637 Chain B: F.656, I.659 Ligands: 6OU.4, EQK.6 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.656, B:I.659, A:I.637 6OU.8: 7 residues within 4Å: Chain B: M.562, T.566, I.579 Chain D: F.592, V.593, F.597 Ligands: EQK.17 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain D Hydrophobic interactions: B:M.562, B:T.566, B:I.579, D:F.592, D:F.592, D:V.593 6OU.9: 10 residues within 4Å: Chain B: L.591, I.595, L.598, S.626, V.629, L.630, F.633 Chain D: I.644, L.655, I.659 11 PLIP interactions: 4 interactions with chain D, 7 interactions with chain B Hydrophobic interactions: D:I.644, D:L.655, D:I.659, D:I.659, B:L.591, B:L.598, B:V.629, B:L.630, B:F.633, B:F.633, B:F.633 6OU.14: 5 residues within 4Å: Chain C: F.656, I.659 Chain D: I.637 Ligands: EQK.16, 6OU.20 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:I.659 6OU.15: 9 residues within 4Å: Chain A: I.644, L.655, I.659 Chain C: L.591, I.595, L.598, S.626, F.633 Ligands: 6OU.5 7 PLIP interactions: 3 interactions with chain C, 4 interactions with chain A Hydrophobic interactions: C:L.591, C:F.633, C:F.633, A:I.644, A:L.655, A:I.659, A:I.659 6OU.18: 6 residues within 4Å: Chain D: Y.594, I.595, L.598, L.630, F.633 Ligands: 6OU.20 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:Y.594, D:I.595, D:L.598, D:L.630, D:F.633 6OU.20: 2 residues within 4Å: Ligands: 6OU.14, 6OU.18 No protein-ligand interaction detected (PLIP)

10 x EQK: N-[5-[2-(2-cyanopropan-2-yl)pyridin-4-yl]-4-(trifluoromethyl)-1,3-thiazol-2-yl]-4,6-dimethoxy-pyrimidine-5-carboxamide(Non-covalent)

EQK.2: 18 residues within 4Å: Chain A: L.635, T.636, I.637, G.638, V.662, T.665, F.666, L.669 Chain B: L.635, L.642, I.659, V.662, I.663, F.666 Chain C: I.637 Ligands: EQK.3, EQK.11, EQK.12 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.636, A:T.665 pi-Stacking: A:F.666 Hydrophobic interactions: B:L.642, B:V.662 EQK.3: 15 residues within 4Å: Chain A: I.663, F.666, V.667, L.670 Chain C: V.587, F.590, Y.594, T.636, I.637, L.669, M.672, L.676 Ligands: EQK.2, EQK.12, EQK.19 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:F.666, A:L.670, C:V.587, C:L.676 pi-Stacking: A:F.666 Hydrogen bonds: C:T.636 EQK.6: 15 residues within 4Å: Chain A: L.553, A.556, L.557, W.559, A.560, M.572 Chain B: V.596, F.597, G.600, F.601, F.656, T.660, I.663, L.664 Ligands: 6OU.7 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.601, B:T.660, B:I.663, B:L.664, A:W.559 EQK.10: 14 residues within 4Å: Chain B: F.666, L.669, L.670, L.673 Chain C: I.663, F.666, V.667 Chain D: F.666, L.669, L.670, L.673, L.676 Ligands: EQK.11, EQK.19 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:I.663, C:F.666, C:V.667 pi-Stacking: C:F.666 EQK.11: 15 residues within 4Å: Chain B: V.587, F.590, T.636, I.637, G.638, L.669, L.673, L.676 Chain D: I.663, F.666, V.667, L.670 Ligands: EQK.2, EQK.10, EQK.19 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain D Hydrophobic interactions: B:V.587, B:L.676, D:F.666, D:L.670 Hydrogen bonds: B:T.636 pi-Stacking: D:F.666 EQK.12: 14 residues within 4Å: Chain A: F.666, L.669, L.670, M.672, L.673 Chain B: I.663, F.666, V.667 Chain C: F.666, L.669, L.670, L.673 Ligands: EQK.2, EQK.3 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:I.663, B:V.667 pi-Stacking: B:F.666 EQK.13: 15 residues within 4Å: Chain A: V.596, F.597, G.600, F.601, F.656, T.660, L.664 Chain C: L.553, A.556, L.557, W.559, A.560, I.583, L.588 Ligands: 6OU.5 6 PLIP interactions: 3 interactions with chain C, 3 interactions with chain A Hydrophobic interactions: C:W.559, C:I.583, A:F.601, A:F.656, A:T.660 Hydrogen bonds: C:A.556 EQK.16: 15 residues within 4Å: Chain C: V.596, F.597, G.600, F.601, F.656, T.660, I.663, L.664 Chain D: L.553, A.556, L.557, W.559, A.560, M.572 Ligands: 6OU.14 5 PLIP interactions: 1 interactions with chain D, 4 interactions with chain C Hydrophobic interactions: D:W.559, C:F.601, C:T.660, C:I.663, C:L.664 EQK.17: 14 residues within 4Å: Chain B: L.553, A.556, L.557, W.559, A.560, L.588 Chain D: V.596, F.597, G.600, F.601, F.656, T.660, L.664 Ligands: 6OU.8 6 PLIP interactions: 3 interactions with chain D, 3 interactions with chain B Hydrophobic interactions: D:F.601, D:T.660, D:L.664, B:W.559, B:L.588 Hydrogen bonds: B:A.556 EQK.19: 18 residues within 4Å: Chain B: I.637 Chain C: L.635, L.642, I.659, V.662, I.663, F.666 Chain D: L.635, T.636, I.637, G.638, V.662, T.665, F.666, L.669 Ligands: EQK.3, EQK.10, EQK.11 5 PLIP interactions: 3 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:T.636, D:T.665 pi-Stacking: D:F.666 Hydrophobic interactions: C:L.642, C:V.662

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fan, J. et al., Structural basis of TRPV3 inhibition by an antagonist. Nat.Chem.Biol. (2023)

Release Date

2022-11-09

Peptides

Fusion protein of Transient receptor potential cation channel subfamily V member 3 and 3C-GFP: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
A

D
D

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Fusion protein of Transient receptor potential cation channel subfamily V member 3 and 3C-GFP

Related Entries With Identical Sequence