SMTL ID : 5zx5.1

3.3 angstrom structure of mouse TRPM7 with EDTA

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

12 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.1: 13 residues within 4Å: Chain A: V.1009, S.1012, F.1013, L.1075, Y.1079 Chain B: Y.922, I.969, V.973, L.976, V.989, M.990, G.993, K.994 8 PLIP interactions: 3 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:V.1009, A:F.1013, A:Y.1079, B:Y.922, B:I.969, B:V.973 Hydrogen bonds: B:G.993 Salt bridges: B:K.994 Y01.2: 13 residues within 4Å: Chain A: Y.922, V.973, L.976, V.989, M.990, G.993, K.994, V.1109, Q.1113 Chain D: V.1009, S.1012, F.1013, V.1078 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain D Hydrophobic interactions: A:Y.922, A:V.973, A:L.976, D:V.1009, D:F.1013, D:V.1078 Hydrogen bonds: A:Q.1113 Salt bridges: A:K.994 Y01.3: 11 residues within 4Å: Chain A: L.1011, P.1027, S.1028, W.1029, A.1032 Chain B: L.863, M.867, T.870, F.871, Y.972 Ligands: Y01.7 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:L.1011, A:P.1027, A:A.1032, B:L.863, B:F.871 Y01.4: 11 residues within 4Å: Chain A: L.863, M.867, T.870, F.871, Y.972 Chain D: L.1011, P.1027, S.1028, W.1029, A.1032 Ligands: Y01.5 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain D Hydrophobic interactions: A:L.863, A:F.871, D:L.1011, D:P.1027, D:W.1029, D:A.1032 Y01.5: 11 residues within 4Å: Chain A: F.855, W.856, L.975, F.978, L.979, V.981, N.982 Chain D: A.1007, L.1008, L.1011 Ligands: Y01.4 11 PLIP interactions: 8 interactions with chain A, 3 interactions with chain D Hydrophobic interactions: A:F.855, A:W.856, A:W.856, A:L.975, A:F.978, A:L.979, A:V.981, A:N.982, D:A.1007, D:L.1008, D:L.1011 Y01.6: 13 residues within 4Å: Chain B: V.1009, S.1012, F.1013, L.1075, Y.1079 Chain C: Y.922, F.923, V.973, L.976, V.989, M.990, G.993, K.994 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain C Hydrophobic interactions: B:V.1009, B:F.1013, B:Y.1079, C:Y.922, C:V.973, C:L.976 Salt bridges: C:K.994 Y01.7: 11 residues within 4Å: Chain A: V.1004, A.1007, L.1008, L.1011 Chain B: F.855, W.856, L.863, L.979, V.981, N.982 Ligands: Y01.3 10 PLIP interactions: 7 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:F.855, B:W.856, B:L.863, B:L.863, B:L.979, B:V.981, B:V.981, A:V.1004, A:L.1008, A:L.1011 Y01.8: 11 residues within 4Å: Chain B: L.1011, P.1027, S.1028, W.1029, A.1032 Chain C: L.863, M.867, T.870, F.871, Y.972 Ligands: Y01.9 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:L.1011, B:P.1027, B:W.1029, B:A.1032, C:L.863, C:F.871 Y01.9: 10 residues within 4Å: Chain B: A.1007, L.1008, L.1010, L.1011 Chain C: F.855, W.856, F.978, V.981, N.982 Ligands: Y01.8 8 PLIP interactions: 3 interactions with chain B, 5 interactions with chain C Hydrophobic interactions: B:A.1007, B:L.1008, B:L.1011, C:F.855, C:F.855, C:W.856, C:V.981, C:N.982 Y01.10: 13 residues within 4Å: Chain C: V.1009, S.1012, F.1013, L.1075, V.1078 Chain D: Y.922, F.923, V.973, L.976, V.989, M.990, G.993, K.994 7 PLIP interactions: 4 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:Y.922, D:V.973, D:L.976, C:V.1009, C:F.1013, C:V.1078 Salt bridges: D:K.994 Y01.11: 11 residues within 4Å: Chain C: L.1011, P.1027, S.1028, W.1029, A.1032 Chain D: L.863, M.867, T.870, F.871, Y.972 Ligands: Y01.12 6 PLIP interactions: 4 interactions with chain C, 2 interactions with chain D Hydrophobic interactions: C:L.1011, C:P.1027, C:W.1029, C:A.1032, D:L.863, D:F.871 Y01.12: 11 residues within 4Å: Chain C: A.1007, L.1011 Chain D: W.746, F.855, W.856, L.863, F.978, L.979, V.981, N.982 Ligands: Y01.11 8 PLIP interactions: 2 interactions with chain C, 6 interactions with chain D Hydrophobic interactions: C:A.1007, C:L.1011, D:F.855, D:W.856, D:L.863, D:L.979, D:V.981, D:N.982

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Duan, J. et al., Structure of the mammalian TRPM7, a magnesium channel required during embryonic development. Proc. Natl. Acad. Sci. U.S.A. (2018)

Release Date

2018-10-17

Peptides

Transient receptor potential cation channel subfamily M member 7: 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 7