SMTL ID : 8e4l.1

The open state mouse TRPM8 structure in complex with the cooling agonist C3, AITC, and PI(4,5)P2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: E.783, Q.786, N.800, D.803, R.843 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.783 CA.5: 5 residues within 4Å: Chain B: E.783, Q.786, N.800, D.803, R.843 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.783 CA.9: 5 residues within 4Å: Chain C: E.783, Q.786, N.800, D.803, R.843 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:E.783 CA.13: 5 residues within 4Å: Chain D: E.783, Q.786, N.800, D.803, R.843 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:E.783

4 x UL9: 3-isothiocyanatoprop-1-ene(Non-covalent)

UL9.2: 6 residues within 4Å: Chain A: L.798, W.799, M.802, L.861, Q.862, L.865 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.862 UL9.6: 6 residues within 4Å: Chain B: L.798, W.799, M.802, L.861, Q.862, L.865 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.862 UL9.10: 6 residues within 4Å: Chain C: L.798, W.799, M.802, L.861, Q.862, L.865 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Q.862 UL9.14: 6 residues within 4Å: Chain D: L.798, W.799, M.802, L.861, Q.862, L.865 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:Q.862

4 x ULO: nonyl(oxo)di(propan-2-yl)-lambda~5~-phosphane(Non-covalent)

ULO.3: 18 residues within 4Å: Chain A: N.742, V.743, F.745, Y.746, V.776, L.779, F.780, E.783, D.803, L.807, F.840, R.843, L.844, H.846, I.847, Y.1006, R.1009, F.1014 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:N.742, A:F.745, A:Y.746, A:Y.746, A:L.779, A:F.780, A:D.803, A:L.807, A:F.840 Hydrogen bonds: A:R.843 ULO.7: 18 residues within 4Å: Chain B: N.742, V.743, F.745, Y.746, V.776, L.779, F.780, E.783, D.803, L.807, F.840, R.843, L.844, H.846, I.847, Y.1006, R.1009, F.1014 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:N.742, B:F.745, B:Y.746, B:Y.746, B:L.779, B:F.780, B:D.803, B:L.807, B:F.840 Hydrogen bonds: B:R.843 ULO.11: 18 residues within 4Å: Chain C: N.742, V.743, F.745, Y.746, V.776, L.779, F.780, E.783, D.803, L.807, F.840, R.843, L.844, H.846, I.847, Y.1006, R.1009, F.1014 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:N.742, C:F.745, C:Y.746, C:Y.746, C:L.779, C:F.780, C:D.803, C:L.807, C:F.840 Hydrogen bonds: C:R.843 ULO.15: 18 residues within 4Å: Chain D: N.742, V.743, F.745, Y.746, V.776, L.779, F.780, E.783, D.803, L.807, F.840, R.843, L.844, H.846, I.847, Y.1006, R.1009, F.1014 10 PLIP interactions: 10 interactions with chain D Hydrophobic interactions: D:N.742, D:F.745, D:Y.746, D:Y.746, D:L.779, D:F.780, D:D.803, D:L.807, D:F.840 Hydrogen bonds: D:R.843

4 x PIO: [(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate(Non-covalent)

PIO.4: 26 residues within 4Å: Chain A: S.680, Y.684, R.689, N.693, I.697, L.700, F.701, F.736, F.739, S.740, V.743, V.744, I.747, L.844, I.847, F.848, V.850, S.851, R.852, N.853, L.854, W.995, R.999 Chain B: K.606, F.873, V.877 14 PLIP interactions: 12 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:F.701, A:F.736, A:F.848 Hydrogen bonds: A:S.680, A:N.693, A:S.851, A:R.852, A:R.852, A:N.853 Salt bridges: A:R.689, A:R.852, A:R.999, B:K.606, B:K.606 PIO.8: 26 residues within 4Å: Chain B: S.680, Y.684, R.689, N.693, I.697, L.700, F.701, F.736, F.739, S.740, V.743, V.744, I.747, L.844, I.847, F.848, V.850, S.851, R.852, N.853, L.854, W.995, R.999 Chain C: K.606, F.873, V.877 14 PLIP interactions: 12 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:F.701, B:F.736, B:F.848 Hydrogen bonds: B:S.680, B:N.693, B:S.851, B:R.852, B:R.852, B:N.853 Salt bridges: B:R.689, B:R.852, B:R.999, C:K.606, C:K.606 PIO.12: 26 residues within 4Å: Chain C: S.680, Y.684, R.689, N.693, I.697, L.700, F.701, F.736, F.739, S.740, V.743, V.744, I.747, L.844, I.847, F.848, V.850, S.851, R.852, N.853, L.854, W.995, R.999 Chain D: K.606, F.873, V.877 14 PLIP interactions: 12 interactions with chain C, 2 interactions with chain D Hydrophobic interactions: C:F.701, C:F.736, C:F.848 Hydrogen bonds: C:S.680, C:N.693, C:S.851, C:R.852, C:R.852, C:N.853 Salt bridges: C:R.689, C:R.852, C:R.999, D:K.606, D:K.606 PIO.16: 26 residues within 4Å: Chain A: K.606, F.873, V.877 Chain D: S.680, Y.684, R.689, N.693, I.697, L.700, F.701, F.736, F.739, S.740, V.743, V.744, I.747, L.844, I.847, F.848, V.850, S.851, R.852, N.853, L.854, W.995, R.999 14 PLIP interactions: 12 interactions with chain D, 2 interactions with chain A Hydrophobic interactions: D:F.701, D:F.736, D:F.848 Hydrogen bonds: D:S.680, D:N.693, D:S.851, D:R.852, D:R.852, D:N.853 Salt bridges: D:R.689, D:R.852, D:R.999, A:K.606, A:K.606

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yin, Y. et al., Activation mechanism of the mouse cold-sensing TRPM8 channel by cooling agonist and PIP 2. Science (2022)

Release Date

2022-10-26

Peptides

Transient receptor potential cation channel subfamily M member 8: 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 M member 8

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