SMTL ID : 9gl6.1

TRPC5 in complex with spin-labelled ligand SpinPico3

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

4 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.1: 14 residues within 4Å: Chain A: W.315, Y.316, K.330, F.364, T.371, L.375, F.379, L.493, L.496, F.497, A.499, N.500 Chain B: L.526, L.529 14 PLIP interactions: 12 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:F.364, A:T.371, A:L.375, A:L.375, A:F.379, A:L.493, A:F.497, A:A.499, A:N.500, B:L.526, B:L.529 Hydrogen bonds: A:Y.316, A:N.500 Salt bridges: A:K.330 Y01.4: 12 residues within 4Å: Chain B: W.315, Y.316, W.322, F.364, T.371, L.375, L.493, L.496, F.497, A.499, N.500 Chain D: L.526 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: B:F.364, B:T.371, B:L.496, D:L.526 Hydrogen bonds: B:Y.316, B:N.500 Salt bridges: B:K.330 Y01.7: 11 residues within 4Å: Chain A: L.526 Chain C: W.315, Y.316, K.330, F.364, I.368, L.375, L.493, F.497, A.499, N.500 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:I.368, C:L.375, C:L.493, C:A.499, C:N.500 Hydrogen bonds: C:Y.316, C:N.500 Salt bridges: C:K.330, C:K.330 Y01.10: 12 residues within 4Å: Chain C: L.526 Chain D: W.315, Y.316, F.364, I.368, L.375, F.379, L.493, F.497, A.499, N.500, S.501 11 PLIP interactions: 10 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:I.368, D:L.375, D:L.493, D:F.497, D:A.499, D:N.500, C:L.526 Hydrogen bonds: D:Y.316, D:S.501, D:S.501 Salt bridges: D:K.330

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 3 residues within 4Å: Chain A: E.418, N.436, D.439 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.418 CA.5: 4 residues within 4Å: Chain B: E.418, N.436, D.439, R.492 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.418 CA.8: 4 residues within 4Å: Chain C: E.418, E.421, N.436, D.439 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:E.418, C:E.421, C:D.439 CA.11: 4 residues within 4Å: Chain D: E.418, E.421, N.436, D.439 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:E.418

4 x 01: 7-[(4-chlorophenyl)methyl]-3-methyl-1-(3-oxidanylpropyl)-8-(1,1,3,3-tetramethyl-2-oxidanyl-isoindol-5-yl)oxy-purine-2,6-dione

01.3: 11 residues within 4Å: Chain A: L.521, F.569, L.572, Q.573, F.576, W.577 Chain B: F.599, A.602, T.603, G.606, T.607 7 PLIP interactions: 1 interactions with chain B, 6 interactions with chain A Hydrogen bonds: B:G.606, A:Q.573 Hydrophobic interactions: A:F.569, A:L.572, A:L.572 pi-Stacking: A:F.576, A:F.576 01.6: 12 residues within 4Å: Chain B: L.521, C.525, F.569, L.572, Q.573, F.576, W.577 Chain D: F.599, A.602, T.603, G.606, T.607 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: B:F.569, B:L.572, B:L.572 Hydrogen bonds: B:Q.573, D:G.606 pi-Stacking: B:F.576, B:F.576 01.9: 11 residues within 4Å: Chain A: F.599, A.602, T.603, G.606, T.607 Chain C: C.525, F.569, L.572, Q.573, F.576, W.577 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:F.569, C:L.572, C:L.572 Hydrogen bonds: C:Q.573, A:G.606 pi-Stacking: C:F.576, C:F.576 01.12: 11 residues within 4Å: Chain C: F.599, A.602, T.603, G.606, T.607 Chain D: C.525, F.569, L.572, Q.573, F.576, W.577 7 PLIP interactions: 6 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:F.569, D:L.572, D:L.572 Hydrogen bonds: D:Q.573, C:G.606 pi-Stacking: D:F.576, D:F.576

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johnson, A.J. et al., Non-covalent spin labelling of TRPC5 ion channels enables EPR studies of protein-ligand interactions. To Be Published

Release Date

2025-09-10

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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