SMTL ID : 6uw6.1

Cryo-EM structure of the human TRPV3 K169A mutant determined in lipid nanodisc

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

20 x 6OU: [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate(Non-covalent)

6OU.1: 11 residues within 4Å: Chain A: M.440, L.443, S.444, K.500, E.501, H.523, F.526, Y.564, Y.565, F.703, M.706 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.443 Hydrogen bonds: A:S.444, A:S.444, A:H.523, A:Y.565 Salt bridges: A:K.500, A:K.500 6OU.2: 7 residues within 4Å: Chain A: E.546, A.549, C.550, L.553 Chain D: I.652, L.653, F.656 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain A Hydrophobic interactions: D:L.653, D:F.656, A:L.553 6OU.3: 10 residues within 4Å: Chain A: L.591, L.598, S.626, V.629, L.630, F.633 Chain D: I.644, L.655, F.656, I.659 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain D Hydrophobic interactions: A:L.591, A:L.598, A:L.630, A:F.633, A:F.633, D:F.656, D:I.659 6OU.4: 8 residues within 4Å: Chain A: L.599, S.624, F.625, S.626 Chain B: I.453, T.456, L.457, Y.460 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.626 Hydrophobic interactions: B:I.453, B:T.456 6OU.5: 2 residues within 4Å: Chain A: L.553, I.579 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.553, A:I.579 6OU.6: 11 residues within 4Å: Chain B: M.440, L.443, S.444, K.500, E.501, H.523, F.526, Y.564, Y.565, F.703, M.706 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.443 Hydrogen bonds: B:S.444, B:S.444, B:H.523, B:Y.565 Salt bridges: B:K.500, B:K.500 6OU.7: 7 residues within 4Å: Chain A: I.652, L.653, F.656 Chain B: E.546, A.549, C.550, L.553 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.653, A:F.656, B:L.553 6OU.8: 10 residues within 4Å: Chain A: I.644, L.655, F.656, I.659 Chain B: L.591, L.598, S.626, V.629, L.630, F.633 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:L.591, B:L.598, B:L.630, B:F.633, B:F.633, A:F.656, A:I.659 6OU.9: 8 residues within 4Å: Chain B: L.599, S.624, F.625, S.626 Chain C: I.453, T.456, L.457, Y.460 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:I.453, C:T.456 Hydrogen bonds: C:Y.460, B:S.626 6OU.10: 2 residues within 4Å: Chain B: L.553, I.579 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.553, B:I.579 6OU.11: 11 residues within 4Å: Chain C: M.440, L.443, S.444, K.500, E.501, H.523, F.526, Y.564, Y.565, F.703, M.706 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:L.443 Hydrogen bonds: C:S.444, C:S.444, C:H.523, C:Y.565 Salt bridges: C:K.500, C:K.500 6OU.12: 6 residues within 4Å: Chain B: L.653, F.656 Chain C: E.546, A.549, C.550, L.553 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:L.653, B:F.656, C:L.553 6OU.13: 10 residues within 4Å: Chain B: I.644, L.655, F.656, I.659 Chain C: L.591, L.598, S.626, V.629, L.630, F.633 8 PLIP interactions: 5 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:L.591, C:L.598, C:L.630, C:F.633, C:F.633, B:L.655, B:F.656, B:I.659 6OU.14: 8 residues within 4Å: Chain C: L.599, S.624, F.625, S.626 Chain D: I.453, T.456, L.457, Y.460 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:I.453, D:T.456 Hydrogen bonds: C:S.626 6OU.15: 2 residues within 4Å: Chain C: L.553, I.579 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:L.553, C:I.579 6OU.16: 11 residues within 4Å: Chain D: M.440, L.443, S.444, K.500, E.501, H.523, F.526, Y.564, Y.565, F.703, M.706 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:L.443 Hydrogen bonds: D:S.444, D:S.444, D:H.523, D:Y.565 Salt bridges: D:K.500, D:K.500 6OU.17: 6 residues within 4Å: Chain C: L.653, F.656 Chain D: E.546, A.549, C.550, L.553 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:L.653, C:F.656, D:L.553 6OU.18: 10 residues within 4Å: Chain C: I.644, L.655, F.656, I.659 Chain D: L.591, L.598, S.626, V.629, L.630, F.633 7 PLIP interactions: 5 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:L.591, D:L.598, D:L.630, D:F.633, D:F.633, C:F.656, C:I.659 6OU.19: 9 residues within 4Å: Chain A: F.449, I.453, T.456, L.457, Y.460 Chain D: L.599, S.624, F.625, S.626 5 PLIP interactions: 1 interactions with chain D, 4 interactions with chain A Hydrogen bonds: D:S.626, A:Y.460 Hydrophobic interactions: A:F.449, A:I.453, A:T.456 6OU.20: 2 residues within 4Å: Chain D: L.553, I.579 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:L.553, D:I.579

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Deng, Z. et al., Gating of human TRPV3 in a lipid bilayer. Nat.Struct.Mol.Biol. (2020)

Release Date

2020-07-01

Peptides

Transient receptor potential cation channel subfamily V member 3: 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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Transient receptor potential cation channel subfamily V member 3

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