SMTL ID : 5z96.1

Structure of the mouse TRPC4 ion channel

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

4 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.1: 17 residues within 4Å: Chain A: Y.315, W.321, F.363, F.366, I.367, L.374, L.377, F.378, L.381, L.492, L.495, F.496, A.498, N.499 Chain D: F.521, L.525, L.528 13 PLIP interactions: 9 interactions with chain A, 4 interactions with chain D Hydrophobic interactions: A:F.363, A:I.367, A:L.377, A:F.378, A:L.381, A:L.492, A:L.495, A:F.496, A:F.496, D:F.521, D:F.521, D:L.525, D:L.528 Y01.5: 16 residues within 4Å: Chain A: F.521, L.525, L.528 Chain B: Y.315, W.321, F.363, F.366, I.367, L.374, L.377, F.378, L.492, L.495, F.496, A.498, N.499 15 PLIP interactions: 10 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:W.321, B:F.363, B:I.367, B:L.377, B:F.378, B:L.492, B:L.495, B:F.496, B:F.496, B:A.498, A:F.521, A:F.521, A:L.525, A:L.525, A:L.528 Y01.9: 13 residues within 4Å: Chain B: F.521, L.525, L.528 Chain C: Y.315, W.321, F.363, F.366, I.367, L.374, L.495, F.496, A.498, N.499 8 PLIP interactions: 3 interactions with chain B, 5 interactions with chain C Hydrophobic interactions: B:F.521, B:F.521, B:F.521, C:F.363, C:I.367, C:L.374, C:L.495, C:F.496 Y01.11: 15 residues within 4Å: Chain C: F.521, L.525, L.528 Chain D: Y.315, W.321, F.363, I.367, L.374, L.377, F.378, L.492, L.495, F.496, A.498, N.499 13 PLIP interactions: 8 interactions with chain D, 5 interactions with chain C Hydrophobic interactions: D:F.363, D:I.367, D:L.377, D:F.378, D:L.492, D:L.495, D:F.496, D:F.496, C:F.521, C:F.521, C:L.525, C:L.525, C:L.528

4 x LPP: 2-(HEXADECANOYLOXY)-1-[(PHOSPHONOOXY)METHYL]ETHYL HEXADECANOATE(Non-covalent)

LPP.2: 21 residues within 4Å: Chain A: L.513, L.520, Y.523, C.524, L.527, L.568, Q.569, F.572, W.573, I.575, S.608, L.612, L.613 Chain D: F.595, A.598, T.599, T.603, V.606, I.607, V.610, V.611 15 PLIP interactions: 10 interactions with chain A, 5 interactions with chain D Hydrophobic interactions: A:L.513, A:L.520, A:Y.523, A:L.527, A:L.568, A:F.572, A:F.572, A:L.612, A:L.613, D:T.603, D:V.606, D:I.607, D:V.610 Hydrogen bonds: A:Q.569, D:T.599 LPP.6: 17 residues within 4Å: Chain A: F.595, A.598, T.599, T.603, V.606, I.607, V.610, V.611 Chain B: L.513, L.520, Y.523, L.527, R.553, Q.569, F.572, W.573, I.575 14 PLIP interactions: 6 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:T.603, A:V.606, A:V.606, A:I.607, A:V.610, B:L.513, B:L.520, B:Y.523, B:F.572, B:F.572, B:F.572 Hydrogen bonds: A:T.599, B:R.553, B:Q.569 LPP.7: 21 residues within 4Å: Chain B: F.595, A.598, T.599, G.602, T.603, V.606, I.607, V.610 Chain C: L.513, L.520, Y.523, L.527, R.553, L.568, Q.569, F.572, W.573, I.575, S.608, L.612, L.613 18 PLIP interactions: 11 interactions with chain C, 7 interactions with chain B Hydrophobic interactions: C:L.513, C:L.520, C:Y.523, C:Y.523, C:F.572, C:F.572, C:F.572, C:L.612, C:L.613, B:T.603, B:V.606, B:V.606, B:I.607, B:V.610, B:V.610 Hydrogen bonds: C:R.553, C:Q.569, B:T.599 LPP.12: 21 residues within 4Å: Chain C: F.595, A.598, T.599, G.602, T.603, V.606, I.607, V.610, V.611 Chain D: L.513, L.520, Y.523, L.527, L.568, Q.569, F.572, W.573, I.575, S.608, L.612, L.613 20 PLIP interactions: 11 interactions with chain D, 9 interactions with chain C Hydrophobic interactions: D:L.513, D:L.520, D:Y.523, D:L.527, D:L.568, D:F.572, D:F.572, D:F.572, D:L.612, D:L.613, C:T.603, C:V.606, C:V.606, C:I.607, C:I.607, C:V.610, C:V.611, C:V.611 Hydrogen bonds: D:Q.569, C:T.599

5 x NA: SODIUM ION(Non-functional Binders)

NA.3: 4 residues within 4Å: Chain A: E.417, Q.420, N.435, D.438 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.420, A:D.438 NA.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) NA.8: 4 residues within 4Å: Chain B: E.417, Q.420, N.435, D.438 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.420, B:Q.420 NA.10: 4 residues within 4Å: Chain C: E.417, Q.420, N.435, D.438 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.417, C:Q.420 NA.13: 4 residues within 4Å: Chain D: E.417, Q.420, N.435, D.438 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:E.417, D:Q.420

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Duan, J. et al., Structure of the mouse TRPC4 ion channel. Nat Commun (2018)

Release Date

2018-04-18

Peptides

Short transient receptor potential channel 4: 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 4

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