SMTL ID : 8wpn.1

Cryo-EM structure of the human TRPC4 in lipid nanodiscs

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.314, Y.315, F.363, F.366, L.374, L.381, L.492, L.495, F.496, A.498, N.499, W.643 Chain D: L.528 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:F.363, A:F.366, A:L.374, A:L.374, A:L.381, A:L.492, A:F.496, A:F.496, A:A.498, A:N.499, D:L.528 Y01.5: 14 residues within 4Å: Chain A: L.525, L.528 Chain B: W.314, Y.315, F.363, F.366, L.374, L.381, L.492, L.495, F.496, A.498, N.499, W.643 12 PLIP interactions: 10 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.363, B:F.366, B:L.374, B:L.374, B:L.381, B:L.492, B:F.496, B:F.496, B:A.498, B:N.499, A:L.525, A:L.528 Y01.9: 14 residues within 4Å: Chain B: L.525, L.528 Chain C: W.314, Y.315, F.363, F.366, L.374, L.381, L.492, L.495, F.496, A.498, N.499, W.643 12 PLIP interactions: 2 interactions with chain B, 10 interactions with chain C Hydrophobic interactions: B:L.525, B:L.528, C:F.363, C:F.366, C:L.374, C:L.374, C:L.381, C:L.492, C:F.496, C:F.496, C:A.498, C:N.499 Y01.14: 14 residues within 4Å: Chain C: L.525, L.528 Chain D: W.314, Y.315, F.363, F.366, L.374, L.381, L.492, L.495, F.496, A.498, N.499, W.643 12 PLIP interactions: 10 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:F.363, D:F.366, D:L.374, D:L.374, D:L.381, D:L.492, D:F.496, D:F.496, D:A.498, D:N.499, C:L.525, C:L.528

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.172, C.176, C.178, C.181 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.172, A:C.176, A:C.178, A:C.181 ZN.6: 4 residues within 4Å: Chain B: H.172, C.176, C.178, C.181 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.172, B:C.176, B:C.178, B:C.181 ZN.10: 4 residues within 4Å: Chain C: H.172, C.176, C.178, C.181 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.172, C:C.176, C:C.178, C:C.181 ZN.15: 4 residues within 4Å: Chain D: H.172, C.176, C.178, C.181 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:H.172, D:C.176, D:C.178, D:C.181

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: E.417, Q.420, N.435, D.438, R.491 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.417, A:D.438 CA.7: 5 residues within 4Å: Chain B: E.417, Q.420, N.435, D.438, R.491 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.417, B:D.438 CA.11: 5 residues within 4Å: Chain C: E.417, Q.420, N.435, D.438, R.491 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:E.417, C:D.438 CA.16: 5 residues within 4Å: Chain D: E.417, Q.420, N.435, D.438, R.491 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:E.417, D:D.438

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

LPP.4: 18 residues within 4Å: Chain A: F.595, A.598, T.599, G.602, T.603, V.606, I.607, V.610 Chain B: L.513, Y.523, C.524, R.553, Q.569, F.572, W.573, I.575, S.608, L.613 11 PLIP interactions: 4 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:V.606, A:I.607, A:I.607, A:V.610, B:Y.523, B:Y.523, B:Y.523, B:Q.569, B:F.572, B:L.613 Salt bridges: B:R.553 LPP.8: 18 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, Y.523, C.524, R.553, Q.569, F.572, W.573, I.575, S.608, L.613 11 PLIP interactions: 7 interactions with chain C, 4 interactions with chain B Hydrophobic interactions: C:Y.523, C:Y.523, C:Y.523, C:Q.569, C:F.572, C:L.613, B:V.606, B:I.607, B:I.607, B:V.610 Salt bridges: C:R.553 LPP.12: 19 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, Y.523, C.524, R.553, Q.569, F.572, W.573, I.575, S.608, L.613 12 PLIP interactions: 7 interactions with chain D, 5 interactions with chain C Hydrophobic interactions: D:Y.523, D:Y.523, D:Y.523, D:Q.569, D:F.572, D:L.613, C:V.606, C:I.607, C:I.607, C:V.610, C:V.611 Salt bridges: D:R.553 LPP.13: 18 residues within 4Å: Chain A: L.513, Y.523, C.524, R.553, Q.569, F.572, W.573, I.575, S.608, L.613 Chain D: F.595, A.598, T.599, G.602, T.603, V.606, I.607, V.610 12 PLIP interactions: 7 interactions with chain A, 5 interactions with chain D Hydrophobic interactions: A:Y.523, A:Y.523, A:Y.523, A:Q.569, A:F.572, A:L.613, D:V.606, D:V.606, D:I.607, D:I.607, D:V.610 Salt bridges: A:R.553

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Won, J. et al., Cryo-EM structure of the heteromeric TRPC1/TRPC4 channel. Nat.Struct.Mol.Biol. (2024)

Release Date

2024-10-16

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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