SMTL ID : 8ixo.1

Intermediate structure of mPIEZO1-S2472E

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

6 x PLX: (9R,11S)-9-({[(1S)-1-HYDROXYHEXADECYL]OXY}METHYL)-2,2-DIMETHYL-5,7,10-TRIOXA-2LAMBDA~5~-AZA-6LAMBDA~5~-PHOSPHAOCTACOSANE-6,6,11-TRIOL(Non-covalent)

PLX.1: 5 residues within 4Å: Chain A: W.1717, K.1727, R.1728, F.1961, F.1962 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.1717, A:W.1717 PLX.2: 14 residues within 4Å: Chain A: R.1159, Y.1160, W.1163, L.1164, V.1167, Y.1680, V.1683, F.1794, F.1795, S.1798, Q.1799, C.1802, Y.1803 Ligands: P5S.4 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.1163, A:L.1164, A:L.1164, A:V.1167, A:Y.1680, A:Y.1680, A:V.1683, A:F.1794, A:F.1795, A:F.1795, A:F.1795 Hydrogen bonds: A:Y.1680, A:S.1798, A:S.1798 Salt bridges: A:R.1159 PLX.6: 5 residues within 4Å: Chain B: W.1717, K.1727, R.1728, F.1961, F.1962 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:W.1717, B:W.1717 PLX.7: 14 residues within 4Å: Chain B: R.1159, Y.1160, W.1163, L.1164, V.1167, Y.1680, V.1683, F.1794, F.1795, S.1798, Q.1799, C.1802, Y.1803 Ligands: P5S.9 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:W.1163, B:L.1164, B:L.1164, B:V.1167, B:Y.1680, B:Y.1680, B:V.1683, B:F.1794, B:F.1795, B:F.1795 Hydrogen bonds: B:Y.1680, B:S.1798, B:S.1798 Salt bridges: B:R.1159 PLX.11: 5 residues within 4Å: Chain C: W.1717, K.1727, R.1728, F.1961, F.1962 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:W.1717, C:W.1717 PLX.12: 14 residues within 4Å: Chain C: R.1159, Y.1160, W.1163, L.1164, V.1167, Y.1680, V.1683, F.1794, F.1795, S.1798, Q.1799, C.1802, Y.1803 Ligands: P5S.14 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:W.1163, C:L.1164, C:L.1164, C:V.1167, C:Y.1680, C:Y.1680, C:V.1683, C:F.1794, C:F.1795, C:F.1795, C:F.1795 Hydrogen bonds: C:Y.1680, C:S.1798, C:S.1798 Salt bridges: C:R.1159

6 x P5S: O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine(Non-covalent)

P5S.3: 5 residues within 4Å: Chain A: R.796, F.800, K.979, I.982, N.983 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:R.796, A:F.800, A:F.800, A:F.800, A:F.800, A:K.979, A:I.982 P5S.4: 13 residues within 4Å: Chain A: C.977, F.981, K.988, F.989, L.1153, V.1157, F.1158, L.1292, I.1296, S.1299, H.1300, Y.1301 Ligands: PLX.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.981, A:F.981, A:L.1153, A:V.1157, A:V.1157, A:L.1292, A:I.1296 Hydrogen bonds: A:H.1300 Salt bridges: A:K.988 P5S.8: 5 residues within 4Å: Chain B: R.796, F.800, K.979, I.982, N.983 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:R.796, B:F.800, B:F.800, B:F.800, B:F.800, B:K.979, B:I.982 P5S.9: 13 residues within 4Å: Chain B: C.977, F.981, K.988, F.989, L.1153, V.1157, F.1158, L.1292, I.1296, S.1299, H.1300, Y.1301 Ligands: PLX.7 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:F.981, B:F.981, B:L.1153, B:V.1157, B:V.1157, B:L.1292, B:I.1296 Hydrogen bonds: B:H.1300 Salt bridges: B:K.988 P5S.13: 5 residues within 4Å: Chain C: R.796, F.800, K.979, I.982, N.983 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:R.796, C:F.800, C:F.800, C:F.800, C:F.800, C:K.979, C:I.982, C:N.983 P5S.14: 13 residues within 4Å: Chain C: C.977, F.981, K.988, F.989, L.1153, V.1157, F.1158, L.1292, I.1296, S.1299, H.1300, Y.1301 Ligands: PLX.12 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:F.981, C:F.981, C:L.1153, C:V.1157, C:V.1157, C:L.1292, C:I.1296 Hydrogen bonds: C:H.1300 Salt bridges: C:K.988

3 x PEE: 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine(Non-covalent)

PEE.5: 15 residues within 4Å: Chain A: Y.1977, A.1978, F.1981, I.1985, I.1988, I.1989, F.1993, F.2028, M.2031, R.2035, Y.2038, G.2107, N.2108, F.2109, L.2131 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:A.1978, A:F.1981, A:F.1981, A:I.1985, A:I.1988, A:I.1988, A:I.1989, A:I.1989, A:F.1993, A:F.2028, A:F.2028, A:M.2031, A:L.2131 Hydrogen bonds: A:Y.2038, A:Y.2038, A:F.2109 Salt bridges: A:R.2035, A:R.2035 PEE.10: 15 residues within 4Å: Chain B: Y.1977, A.1978, F.1981, I.1985, I.1988, I.1989, F.1993, F.2028, M.2031, R.2035, Y.2038, G.2107, N.2108, F.2109, L.2131 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:A.1978, B:F.1981, B:F.1981, B:I.1985, B:I.1988, B:I.1988, B:I.1989, B:I.1989, B:F.1993, B:F.2028, B:F.2028, B:M.2031, B:L.2131 Hydrogen bonds: B:Y.2038, B:Y.2038, B:F.2109 Salt bridges: B:R.2035, B:R.2035 PEE.15: 15 residues within 4Å: Chain C: Y.1977, A.1978, F.1981, I.1985, I.1988, I.1989, F.1993, F.2028, M.2031, R.2035, Y.2038, G.2107, N.2108, F.2109, L.2131 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:A.1978, C:F.1981, C:F.1981, C:I.1985, C:I.1988, C:I.1988, C:I.1989, C:I.1989, C:F.1993, C:F.2028, C:F.2028, C:M.2031, C:L.2131 Hydrogen bonds: C:Y.2038, C:Y.2038, C:F.2109 Salt bridges: C:R.2035, C:R.2035

Links

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Citation

Liu, S. et al., An intermediate open structure reveals the gating transition of the mechanically activated PIEZO1 channel. Neuron (2024)

Release Date

2025-01-01

Peptides

Piezo-type mechanosensitive ion channel component 1: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
A

C
B

Piezo-type mechanosensitive ion channel component 1

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