SMTL ID : 6bqv.1

Human TRPM4 ion channel in lipid nanodiscs in a calcium-bound state

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.832, Q.835, Y.863, N.869, D.872 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.832, A:D.872 CA.5: 5 residues within 4Å: Chain B: E.832, Q.835, Y.863, N.869, D.872 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.832, B:D.872 CA.9: 5 residues within 4Å: Chain C: E.832, Q.835, Y.863, N.869, D.872 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:E.832, C:D.872 CA.13: 5 residues within 4Å: Chain D: E.832, Q.835, Y.863, N.869, D.872 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:E.832, D:D.872

12 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.2: 10 residues within 4Å: Chain A: W.684, I.694, V.698, F.787, M.788, V.791, V.792, L.795, L.799, N.917 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.694, A:I.694, A:V.698, A:V.698, A:V.791, A:V.792, A:L.795, A:L.799 Y01.3: 14 residues within 4Å: Chain A: L.938, L.941, G.942, L.945, P.964, L.967, R.968, F.971, Y.972, Y.975 Chain C: W.1022, V.1025, V.1029 Ligands: Y01.4 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:L.938, A:L.941, A:Y.972, A:Y.975, C:V.1029 Salt bridges: A:R.968 Y01.4: 12 residues within 4Å: Chain A: L.911, H.912, I.924, V.925, V.927, S.928, M.931 Chain C: V.1029, I.1030, L.1033, V.1034 Ligands: Y01.3 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:L.911, A:I.924, A:V.927, C:V.1029, C:L.1033, C:V.1034 Hydrogen bonds: A:W.868, A:S.928 Salt bridges: A:H.912 Y01.6: 10 residues within 4Å: Chain B: W.684, I.694, V.698, F.787, M.788, V.791, V.792, L.795, L.799, N.917 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:I.694, B:I.694, B:V.698, B:V.698, B:V.791, B:V.792, B:L.795, B:L.799 Y01.7: 14 residues within 4Å: Chain A: W.1022, V.1025, V.1029 Chain B: L.938, L.941, G.942, L.945, P.964, L.967, R.968, F.971, Y.972, Y.975 Ligands: Y01.8 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.938, B:L.941, B:Y.972, B:Y.975, A:V.1029 Salt bridges: B:R.968 Y01.8: 13 residues within 4Å: Chain A: V.1029, I.1030, L.1033, V.1034 Chain B: W.868, L.911, H.912, I.924, V.925, V.927, S.928, M.931 Ligands: Y01.7 9 PLIP interactions: 6 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:L.911, B:I.924, B:V.927, A:V.1029, A:L.1033, A:V.1034 Hydrogen bonds: B:W.868, B:S.928 Salt bridges: B:H.912 Y01.10: 10 residues within 4Å: Chain C: W.684, I.694, V.698, F.787, M.788, V.791, V.792, L.795, L.799, N.917 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:I.694, C:I.694, C:V.698, C:V.698, C:V.791, C:V.792, C:L.795, C:L.799 Y01.11: 14 residues within 4Å: Chain C: L.938, L.941, G.942, L.945, P.964, L.967, R.968, F.971, Y.972, Y.975 Chain D: W.1022, V.1025, V.1029 Ligands: Y01.12 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:L.938, C:L.941, C:Y.972, C:Y.975, D:V.1029 Salt bridges: C:R.968 Y01.12: 13 residues within 4Å: Chain C: W.868, L.911, H.912, I.924, V.925, V.927, S.928, M.931 Chain D: V.1029, I.1030, L.1033, V.1034 Ligands: Y01.11 9 PLIP interactions: 6 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: C:L.911, C:I.924, C:V.927, D:V.1029, D:L.1033, D:V.1034 Hydrogen bonds: C:W.868, C:S.928 Salt bridges: C:H.912 Y01.14: 10 residues within 4Å: Chain D: W.684, I.694, V.698, F.787, M.788, V.791, V.792, L.795, L.799, N.917 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:I.694, D:I.694, D:V.698, D:V.698, D:V.791, D:V.792, D:L.795, D:L.799 Y01.15: 14 residues within 4Å: Chain B: W.1022, V.1025, V.1029 Chain D: L.938, L.941, G.942, L.945, P.964, L.967, R.968, F.971, Y.972, Y.975 Ligands: Y01.16 6 PLIP interactions: 5 interactions with chain D, 1 interactions with chain B Hydrophobic interactions: D:L.938, D:L.941, D:Y.972, D:Y.975, B:V.1029 Salt bridges: D:R.968 Y01.16: 12 residues within 4Å: Chain B: V.1029, I.1030, L.1033, V.1034 Chain D: L.911, H.912, I.924, V.925, V.927, S.928, M.931 Ligands: Y01.15 9 PLIP interactions: 3 interactions with chain B, 6 interactions with chain D Hydrophobic interactions: B:V.1029, B:L.1033, B:V.1034, D:L.911, D:I.924, D:V.927 Hydrogen bonds: D:W.868, D:S.928 Salt bridges: D:H.912

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Autzen, H.E. et al., Structure of the human TRPM4 ion channel in a lipid nanodisc. Science (2018)

Release Date

2017-12-20

Peptides

Transient receptor potential cation channel subfamily M member 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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Transient receptor potential cation channel subfamily M member 4