SMTL ID : 8tf3.1

Wildtype rabbit TRPV5 into nanodiscs in complex with econazole

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

8 x ERG: ERGOSTEROL(Non-covalent)

ERG.1: 13 residues within 4Å: Chain A: F.425, F.456, V.459, L.460, M.466, T.479, I.482, Q.483, I.486 Chain D: F.504, I.557, A.561, I.565 16 PLIP interactions: 3 interactions with chain D, 13 interactions with chain A Hydrophobic interactions: D:F.504, D:I.557, D:A.561, A:F.425, A:F.425, A:F.456, A:F.456, A:V.459, A:V.459, A:L.460, A:T.479, A:I.482, A:I.486 Hydrogen bonds: A:T.479, A:Q.483, A:Q.483 ERG.2: 12 residues within 4Å: Chain A: C.494, M.497, A.498, I.501, P.527, L.530, F.531, F.534 Chain D: C.556, A.560, I.564 Ligands: CPL.6 8 PLIP interactions: 2 interactions with chain D, 6 interactions with chain A Hydrophobic interactions: D:A.560, D:I.564, A:A.498, A:I.501, A:P.527, A:L.530, A:F.531, A:F.534 ERG.7: 13 residues within 4Å: Chain A: F.504, I.557, A.561, I.565 Chain B: F.425, F.456, V.459, L.460, M.466, T.479, I.482, Q.483, I.486 16 PLIP interactions: 3 interactions with chain A, 13 interactions with chain B Hydrophobic interactions: A:F.504, A:I.557, A:A.561, B:F.425, B:F.425, B:F.456, B:F.456, B:V.459, B:V.459, B:L.460, B:T.479, B:I.482, B:I.486 Hydrogen bonds: B:T.479, B:Q.483, B:Q.483 ERG.8: 12 residues within 4Å: Chain A: C.556, A.560, I.564 Chain B: C.494, M.497, A.498, I.501, P.527, L.530, F.531, F.534 Ligands: CPL.11 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:A.498, B:I.501, B:P.527, B:L.530, B:F.531, B:F.534, A:A.560, A:I.564 ERG.12: 13 residues within 4Å: Chain B: F.504, I.557, A.561, I.565 Chain C: F.425, F.456, V.459, L.460, M.466, T.479, I.482, Q.483, I.486 16 PLIP interactions: 13 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:F.425, C:F.425, C:F.456, C:F.456, C:V.459, C:V.459, C:L.460, C:T.479, C:I.482, C:I.486, B:F.504, B:I.557, B:A.561 Hydrogen bonds: C:T.479, C:Q.483, C:Q.483 ERG.13: 12 residues within 4Å: Chain B: C.556, A.560, I.564 Chain C: C.494, M.497, A.498, I.501, P.527, L.530, F.531, F.534 Ligands: CPL.16 8 PLIP interactions: 6 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:A.498, C:I.501, C:P.527, C:L.530, C:F.531, C:F.534, B:A.560, B:I.564 ERG.17: 13 residues within 4Å: Chain C: F.504, I.557, A.561, I.565 Chain D: F.425, F.456, V.459, L.460, M.466, T.479, I.482, Q.483, I.486 16 PLIP interactions: 13 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:F.425, D:F.425, D:F.456, D:F.456, D:V.459, D:V.459, D:L.460, D:T.479, D:I.482, D:I.486, C:F.504, C:I.557, C:A.561 Hydrogen bonds: D:T.479, D:Q.483, D:Q.483 ERG.18: 12 residues within 4Å: Chain C: C.556, A.560, I.564 Chain D: C.494, M.497, A.498, I.501, P.527, L.530, F.531, F.534 Ligands: CPL.5 8 PLIP interactions: 6 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:A.498, D:I.501, D:P.527, D:L.530, D:F.531, D:F.534, C:A.560, C:I.564

8 x CPL: 1-PALMITOYL-2-LINOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

CPL.3: 11 residues within 4Å: Chain A: F.343, L.373, Y.377, L.386, E.389, T.392, V.393, T.439, M.440, L.444, L.454 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.343, A:L.373, A:Y.377, A:L.386, A:E.389, A:T.392, A:V.393, A:T.439, A:M.440, A:L.444, A:L.454 CPL.5: 18 residues within 4Å: Chain A: I.337, I.341, T.344, T.345, I.348, Y.349 Chain D: M.491, C.494, W.495, A.498, V.499, L.502, D.525, Y.526, P.527, L.530 Ligands: ECN.4, ERG.18 14 PLIP interactions: 6 interactions with chain A, 8 interactions with chain D Hydrophobic interactions: A:I.337, A:I.341, A:I.341, A:I.341, A:T.344, A:I.348, D:W.495, D:V.499, D:L.502, D:Y.526, D:Y.526, D:P.527, D:L.530 Hydrogen bonds: D:Y.526 CPL.6: 18 residues within 4Å: Chain A: M.491, C.494, W.495, A.498, V.499, L.502, D.525, Y.526, P.527, L.530 Chain B: I.337, I.341, T.344, T.345, I.348, Y.349 Ligands: ERG.2, ECN.10 14 PLIP interactions: 6 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:I.337, B:I.341, B:I.341, B:I.341, B:T.344, B:I.348, A:W.495, A:V.499, A:L.502, A:Y.526, A:Y.526, A:P.527, A:L.530 Hydrogen bonds: A:Y.526 CPL.9: 11 residues within 4Å: Chain B: F.343, L.373, Y.377, L.386, E.389, T.392, V.393, T.439, M.440, L.444, L.454 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:F.343, B:L.373, B:Y.377, B:L.386, B:E.389, B:T.392, B:V.393, B:T.439, B:M.440, B:L.444, B:L.454 CPL.11: 18 residues within 4Å: Chain B: M.491, C.494, W.495, A.498, V.499, L.502, D.525, Y.526, P.527, L.530 Chain C: I.337, I.341, T.344, T.345, I.348, Y.349 Ligands: ERG.8, ECN.15 14 PLIP interactions: 8 interactions with chain B, 6 interactions with chain C Hydrophobic interactions: B:W.495, B:V.499, B:L.502, B:Y.526, B:Y.526, B:P.527, B:L.530, C:I.337, C:I.341, C:I.341, C:I.341, C:T.344, C:I.348 Hydrogen bonds: B:Y.526 CPL.14: 11 residues within 4Å: Chain C: F.343, L.373, Y.377, L.386, E.389, T.392, V.393, T.439, M.440, L.444, L.454 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:F.343, C:L.373, C:Y.377, C:L.386, C:E.389, C:T.392, C:V.393, C:T.439, C:M.440, C:L.444, C:L.454 CPL.16: 18 residues within 4Å: Chain C: M.491, C.494, W.495, A.498, V.499, L.502, D.525, Y.526, P.527, L.530 Chain D: I.337, I.341, T.344, T.345, I.348, Y.349 Ligands: ERG.13, ECN.20 14 PLIP interactions: 8 interactions with chain C, 6 interactions with chain D Hydrophobic interactions: C:W.495, C:V.499, C:L.502, C:Y.526, C:Y.526, C:P.527, C:L.530, D:I.337, D:I.341, D:I.341, D:I.341, D:T.344, D:I.348 Hydrogen bonds: C:Y.526 CPL.19: 11 residues within 4Å: Chain D: F.343, L.373, Y.377, L.386, E.389, T.392, V.393, T.439, M.440, L.444, L.454 11 PLIP interactions: 11 interactions with chain D Hydrophobic interactions: D:F.343, D:L.373, D:Y.377, D:L.386, D:E.389, D:T.392, D:V.393, D:T.439, D:M.440, D:L.444, D:L.454

4 x ECN: 1-[(2S)-2-[(4-CHLOROBENZYL)OXY]-2-(2,4-DICHLOROPHENYL)ETHYL]-1H-IMIDAZOLE(Non-covalent)

ECN.4: 12 residues within 4Å: Chain A: S.334, I.337, V.465, M.466, F.468, A.469, F.472, L.475 Chain D: W.495, L.496, V.499 Ligands: CPL.5 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain D Hydrophobic interactions: A:I.337, A:A.469, A:L.475, D:W.495, D:W.495 pi-Stacking: D:W.495 ECN.10: 12 residues within 4Å: Chain A: W.495, L.496, V.499 Chain B: S.334, I.337, V.465, M.466, F.468, A.469, F.472, L.475 Ligands: CPL.6 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:I.337, B:A.469, B:L.475, A:W.495, A:W.495 pi-Stacking: A:W.495 ECN.15: 12 residues within 4Å: Chain B: W.495, L.496, V.499 Chain C: S.334, I.337, V.465, M.466, F.468, A.469, F.472, L.475 Ligands: CPL.11 6 PLIP interactions: 3 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:I.337, C:A.469, C:L.475, B:W.495, B:W.495 pi-Stacking: B:W.495 ECN.20: 12 residues within 4Å: Chain C: W.495, L.496, V.499 Chain D: S.334, I.337, V.465, M.466, F.468, A.469, F.472, L.475 Ligands: CPL.16 6 PLIP interactions: 3 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:I.337, D:A.469, D:L.475, C:W.495, C:W.495 pi-Stacking: C:W.495

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

De Jesus-Perez, J.J. et al., Structural mechanism of TRPV5 inhibition by econazole. Structure (2024)

Release Date

2024-01-10

Peptides

Transient receptor potential cation channel subfamily V member 5: 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.
Show / Hide

Transient receptor potential cation channel subfamily V member 5

Related Entries With Identical Sequence