SMTL ID : 9m5v.1

Structure of human TRPC5 bound with (-)-englerin A,class1

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

4 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.1: 13 residues within 4Å: Chain A: W.318, Y.319, F.367, T.374, L.378, L.496, L.499, F.500, A.502, N.503, L.506 Chain D: F.525, L.532 11 PLIP interactions: 2 interactions with chain D, 9 interactions with chain A Hydrophobic interactions: D:F.525, D:L.532, A:F.367, A:T.374, A:L.378, A:L.496, A:F.500, A:F.500, A:A.502, A:L.506 Hydrogen bonds: A:N.503 Y01.6: 13 residues within 4Å: Chain A: F.525, L.532 Chain B: W.318, Y.319, F.367, T.374, L.378, L.496, L.499, F.500, A.502, N.503, L.506 11 PLIP interactions: 9 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.367, B:T.374, B:L.378, B:L.496, B:F.500, B:F.500, B:A.502, B:L.506, A:F.525, A:L.532 Hydrogen bonds: B:N.503 Y01.11: 13 residues within 4Å: Chain B: F.525, L.532 Chain C: W.318, Y.319, F.367, T.374, L.378, L.496, L.499, F.500, A.502, N.503, L.506 11 PLIP interactions: 9 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:F.367, C:T.374, C:L.378, C:L.496, C:F.500, C:F.500, C:A.502, C:L.506, B:F.525, B:L.532 Hydrogen bonds: C:N.503 Y01.16: 13 residues within 4Å: Chain C: F.525, L.532 Chain D: W.318, Y.319, F.367, T.374, L.378, L.496, L.499, F.500, A.502, N.503, L.506 11 PLIP interactions: 9 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:F.367, D:T.374, D:L.378, D:L.496, D:F.500, D:F.500, D:A.502, D:L.506, C:F.525, C:L.532 Hydrogen bonds: D:N.503

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.175, C.179, C.181, C.184 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.175, A:C.179, A:C.181, A:C.184 ZN.7: 4 residues within 4Å: Chain B: H.175, C.179, C.181, C.184 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.175, B:C.179, B:C.181, B:C.184 ZN.12: 4 residues within 4Å: Chain C: H.175, C.179, C.181, C.184 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.175, C:C.179, C:C.181, C:C.184 ZN.17: 4 residues within 4Å: Chain D: H.175, C.179, C.181, C.184 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:H.175, D:C.179, D:C.181, D:C.184

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 3 residues within 4Å: Chain A: E.424, N.439, D.442 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.442 CA.8: 3 residues within 4Å: Chain B: E.424, N.439, D.442 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.442 CA.13: 3 residues within 4Å: Chain C: E.424, N.439, D.442 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:D.442 CA.18: 3 residues within 4Å: Chain D: E.424, N.439, D.442 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:D.442

4 x PTY: PHOSPHATIDYLETHANOLAMINE(Non-covalent)

PTY.4: 16 residues within 4Å: Chain A: W.437, W.438, M.441, L.448, I.487, L.491, L.494, Q.510, G.514, R.515, L.518 Chain D: F.534, T.606, M.607, T.610, I.614 16 PLIP interactions: 12 interactions with chain A, 4 interactions with chain D Hydrophobic interactions: A:W.437, A:W.438, A:M.441, A:L.448, A:L.448, A:I.487, A:L.491, A:L.491, A:L.494, D:F.534, D:T.606, D:T.610, D:I.614 Hydrogen bonds: A:Q.510, A:G.514, A:R.515 PTY.9: 16 residues within 4Å: Chain A: F.534, T.606, M.607, T.610, I.614 Chain B: W.437, W.438, M.441, L.448, I.487, L.491, L.494, Q.510, G.514, R.515, L.518 16 PLIP interactions: 12 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:W.437, B:W.438, B:M.441, B:L.448, B:L.448, B:I.487, B:L.491, B:L.491, B:L.494, A:F.534, A:T.606, A:T.610, A:I.614 Hydrogen bonds: B:Q.510, B:G.514, B:R.515 PTY.14: 16 residues within 4Å: Chain B: F.534, T.606, M.607, T.610, I.614 Chain C: W.437, W.438, M.441, L.448, I.487, L.491, L.494, Q.510, G.514, R.515, L.518 16 PLIP interactions: 12 interactions with chain C, 4 interactions with chain B Hydrophobic interactions: C:W.437, C:W.438, C:M.441, C:L.448, C:L.448, C:I.487, C:L.491, C:L.491, C:L.494, B:F.534, B:T.606, B:T.610, B:I.614 Hydrogen bonds: C:Q.510, C:G.514, C:R.515 PTY.19: 16 residues within 4Å: Chain C: F.534, T.606, M.607, T.610, I.614 Chain D: W.437, W.438, M.441, L.448, I.487, L.491, L.494, Q.510, G.514, R.515, L.518 16 PLIP interactions: 12 interactions with chain D, 4 interactions with chain C Hydrophobic interactions: D:W.437, D:W.438, D:M.441, D:L.448, D:L.448, D:I.487, D:L.491, D:L.491, D:L.494, C:F.534, C:T.606, C:T.610, C:I.614 Hydrogen bonds: D:Q.510, D:G.514, D:R.515

4 x 01: (-)-englerin A

01.5: 17 residues within 4Å: Chain A: F.523, L.524, Y.527, L.531, R.560, L.575, Q.576, F.579, W.580, V.582, L.620 Chain D: F.602, A.605, T.606, T.610, V.613, V.617 16 PLIP interactions: 3 interactions with chain D, 13 interactions with chain A Hydrophobic interactions: D:F.602, D:V.613, D:V.617, A:F.523, A:L.524, A:Y.527, A:Y.527, A:L.531, A:L.575, A:F.579, A:F.579, A:F.579, A:V.582, A:L.620 Hydrogen bonds: A:R.560, A:Q.576 01.10: 17 residues within 4Å: Chain A: F.602, A.605, T.606, T.610, V.613, V.617 Chain B: F.523, L.524, Y.527, L.531, R.560, L.575, Q.576, F.579, W.580, V.582, L.620 16 PLIP interactions: 13 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:F.523, B:L.524, B:Y.527, B:Y.527, B:L.531, B:L.575, B:F.579, B:F.579, B:F.579, B:V.582, B:L.620, A:F.602, A:V.613, A:V.617 Hydrogen bonds: B:R.560, B:Q.576 01.15: 17 residues within 4Å: Chain B: F.602, A.605, T.606, T.610, V.613, V.617 Chain C: F.523, L.524, Y.527, L.531, R.560, L.575, Q.576, F.579, W.580, V.582, L.620 16 PLIP interactions: 13 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:F.523, C:L.524, C:Y.527, C:Y.527, C:L.531, C:L.575, C:F.579, C:F.579, C:F.579, C:V.582, C:L.620, B:F.602, B:V.613, B:V.617 Hydrogen bonds: C:R.560, C:Q.576 01.20: 17 residues within 4Å: Chain C: F.602, A.605, T.606, T.610, V.613, V.617 Chain D: F.523, L.524, Y.527, L.531, R.560, L.575, Q.576, F.579, W.580, V.582, L.620 16 PLIP interactions: 13 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:F.523, D:L.524, D:Y.527, D:Y.527, D:L.531, D:L.575, D:F.579, D:F.579, D:F.579, D:V.582, D:L.620, C:F.602, C:V.613, C:V.617 Hydrogen bonds: D:R.560, D:Q.576

Links

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Citation

Chen, Y.K. et al., Class1 structure of human TRPC5 bound with (-)-englerin A. To Be Published

Release Date

2025-07-02

Peptides

Short transient receptor potential channel 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.
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Short transient receptor potential channel 5