SMTL ID : 9m36.1

Structure of human TRPC5 in the low Ca environment.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.172, C.176, C.178, C.181 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.172, A:C.176, A:C.178 ZN.6: 4 residues within 4Å: Chain B: H.172, C.176, C.178, C.181 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.172, B:C.176, B:C.178 ZN.11: 4 residues within 4Å: Chain C: H.172, C.176, C.178, C.181 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:H.172, C:C.176, C:C.178 ZN.16: 4 residues within 4Å: Chain D: H.172, C.176, C.178, C.181 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:H.172, D:C.176, D:C.178

4 x PTY: PHOSPHATIDYLETHANOLAMINE(Non-covalent)

PTY.2: 19 residues within 4Å: Chain A: D.433, W.434, W.435, L.437, M.438, I.484, I.487, L.488, L.491, Q.507, G.511, L.514 Chain D: F.531, V.600, T.603, M.604, T.607, I.611 Ligands: 01.5 14 PLIP interactions: 9 interactions with chain A, 5 interactions with chain D Hydrophobic interactions: A:L.437, A:M.438, A:I.484, A:I.484, A:I.487, A:L.488, D:F.531, D:V.600, D:T.603, D:T.607, D:I.611 Hydrogen bonds: A:D.433, A:W.434, A:Q.507 PTY.7: 19 residues within 4Å: Chain A: F.531, V.600, T.603, M.604, T.607, I.611 Chain B: D.433, W.434, W.435, L.437, M.438, I.484, I.487, L.488, L.491, Q.507, G.511, L.514 Ligands: 01.10 14 PLIP interactions: 5 interactions with chain A, 9 interactions with chain B Hydrophobic interactions: A:F.531, A:V.600, A:T.603, A:T.607, A:I.611, B:L.437, B:M.438, B:I.484, B:I.484, B:I.487, B:L.488 Hydrogen bonds: B:D.433, B:W.434, B:Q.507 PTY.12: 19 residues within 4Å: Chain B: F.531, V.600, T.603, M.604, T.607, I.611 Chain C: D.433, W.434, W.435, L.437, M.438, I.484, I.487, L.488, L.491, Q.507, G.511, L.514 Ligands: 01.15 14 PLIP interactions: 9 interactions with chain C, 5 interactions with chain B Hydrophobic interactions: C:L.437, C:M.438, C:I.484, C:I.484, C:I.487, C:L.488, B:F.531, B:V.600, B:T.603, B:T.607, B:I.611 Hydrogen bonds: C:D.433, C:W.434, C:Q.507 PTY.17: 19 residues within 4Å: Chain C: F.531, V.600, T.603, M.604, T.607, I.611 Chain D: D.433, W.434, W.435, L.437, M.438, I.484, I.487, L.488, L.491, Q.507, G.511, L.514 Ligands: 01.20 14 PLIP interactions: 9 interactions with chain D, 5 interactions with chain C Hydrophobic interactions: D:L.437, D:M.438, D:I.484, D:I.484, D:I.487, D:L.488, C:F.531, C:V.600, C:T.603, C:T.607, C:I.611 Hydrogen bonds: D:D.433, D:W.434, D:Q.507

4 x POV: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate(Non-covalent)

POV.3: 10 residues within 4Å: Chain A: F.440, S.444, L.445, A.448, L.452, E.470, W.472, I.477, L.481, I.484 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.440, A:L.445, A:A.448, A:W.472, A:L.481, A:I.484, A:I.484 POV.8: 10 residues within 4Å: Chain B: F.440, S.444, L.445, A.448, L.452, E.470, W.472, I.477, L.481, I.484 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:F.440, B:L.445, B:A.448, B:W.472, B:L.481, B:I.484, B:I.484 POV.13: 10 residues within 4Å: Chain C: F.440, S.444, L.445, A.448, L.452, E.470, W.472, I.477, L.481, I.484 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:F.440, C:L.445, C:A.448, C:W.472, C:L.481, C:I.484, C:I.484 POV.18: 10 residues within 4Å: Chain D: F.440, S.444, L.445, A.448, L.452, E.470, W.472, I.477, L.481, I.484 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:F.440, D:L.445, D:A.448, D:W.472, D:L.481, D:I.484, D:I.484

4 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.4: 14 residues within 4Å: Chain A: W.315, Y.316, F.364, T.371, L.375, L.493, L.496, F.497, A.499, N.500 Chain D: F.522, C.525, L.526, L.529 10 PLIP interactions: 7 interactions with chain A, 3 interactions with chain D Hydrophobic interactions: A:T.371, A:L.375, A:L.493, A:F.497, A:F.497, D:F.522, D:L.526, D:L.529 Hydrogen bonds: A:Y.316, A:N.500 Y01.9: 14 residues within 4Å: Chain A: F.522, C.525, L.526, L.529 Chain B: W.315, Y.316, F.364, T.371, L.375, L.493, L.496, F.497, A.499, N.500 10 PLIP interactions: 7 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:T.371, B:L.375, B:L.493, B:F.497, B:F.497, A:F.522, A:L.526, A:L.529 Hydrogen bonds: B:Y.316, B:N.500 Y01.14: 14 residues within 4Å: Chain B: F.522, C.525, L.526, L.529 Chain C: W.315, Y.316, F.364, T.371, L.375, L.493, L.496, F.497, A.499, N.500 10 PLIP interactions: 7 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:T.371, C:L.375, C:L.493, C:F.497, C:F.497, B:F.522, B:L.526, B:L.529 Hydrogen bonds: C:Y.316, C:N.500 Y01.19: 14 residues within 4Å: Chain C: F.522, C.525, L.526, L.529 Chain D: W.315, Y.316, F.364, T.371, L.375, L.493, L.496, F.497, A.499, N.500 10 PLIP interactions: 3 interactions with chain C, 7 interactions with chain D Hydrophobic interactions: C:F.522, C:L.526, C:L.529, D:T.371, D:L.375, D:L.493, D:F.497, D:F.497 Hydrogen bonds: D:Y.316, D:N.500

4 x 01: [(2~{S})-2-[(~{E})-octadec-9-enoyl]oxy-3-oxidanyl-propyl] octadec-9-enoate

01.5: 16 residues within 4Å: Chain A: L.514, L.521, Y.524, L.528, Q.573, F.576, W.577, V.579 Chain D: F.599, A.602, T.603, G.606, T.607, V.610, I.611 Ligands: PTY.2 15 PLIP interactions: 11 interactions with chain A, 4 interactions with chain D Hydrophobic interactions: A:L.514, A:L.521, A:Y.524, A:Y.524, A:Y.524, A:L.528, A:Q.573, A:F.576, A:F.576, A:V.579, D:V.610, D:I.611, D:I.611 Hydrogen bonds: A:Q.573, D:G.606 01.10: 16 residues within 4Å: Chain A: F.599, A.602, T.603, G.606, T.607, V.610, I.611 Chain B: L.514, L.521, Y.524, L.528, Q.573, F.576, W.577, V.579 Ligands: PTY.7 15 PLIP interactions: 4 interactions with chain A, 11 interactions with chain B Hydrophobic interactions: A:V.610, A:I.611, A:I.611, B:L.514, B:L.521, B:Y.524, B:Y.524, B:Y.524, B:L.528, B:Q.573, B:F.576, B:F.576, B:V.579 Hydrogen bonds: A:G.606, B:Q.573 01.15: 16 residues within 4Å: Chain B: F.599, A.602, T.603, G.606, T.607, V.610, I.611 Chain C: L.514, L.521, Y.524, L.528, Q.573, F.576, W.577, V.579 Ligands: PTY.12 15 PLIP interactions: 4 interactions with chain B, 11 interactions with chain C Hydrophobic interactions: B:V.610, B:I.611, B:I.611, C:L.514, C:L.521, C:Y.524, C:Y.524, C:Y.524, C:L.528, C:Q.573, C:F.576, C:F.576, C:V.579 Hydrogen bonds: B:G.606, C:Q.573 01.20: 16 residues within 4Å: Chain C: F.599, A.602, T.603, G.606, T.607, V.610, I.611 Chain D: L.514, L.521, Y.524, L.528, Q.573, F.576, W.577, V.579 Ligands: PTY.17 15 PLIP interactions: 11 interactions with chain D, 4 interactions with chain C Hydrophobic interactions: D:L.514, D:L.521, D:Y.524, D:Y.524, D:Y.524, D:L.528, D:Q.573, D:F.576, D:F.576, D:V.579, C:V.610, C:I.611, C:I.611 Hydrogen bonds: D:Q.573, C:G.606

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Song, K.C. et al., Structure of human TRPC5 in the low Ca environment. 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

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