- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- homo-tetramer
- Ligands
- 52 x POV: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate(Non-covalent)
- 4 x 3FD: 4-[[(2R,3S,4R,5R)-5-[6-amino-8-[(3,4-dichlorophenyl)methylamino]purin-9-yl]-3,4-dihydroxy-oxolan-2-yl]methoxymethyl]benzonitrile(Non-covalent)
3FD.4: 20 residues within 4Å:- Chain A: S.920, D.921, Y.922, F.923, V.973, L.976, D.977, A.980, V.981, V.989, M.990, I.992, G.993, K.994, V.1109, W.1110, Q.1113, R.1114, F.1117
- Ligands: POV.1
14 PLIP interactions:14 interactions with chain A- Hydrophobic interactions: A:F.923, A:A.980, A:V.981, A:V.989, A:Q.1113, A:F.1117, A:F.1117
- Hydrogen bonds: A:Y.922, A:F.923, A:M.990, A:K.994, A:Q.1113, A:R.1114
- pi-Stacking: A:Y.922
3FD.23: 20 residues within 4Å:- Chain B: S.920, D.921, Y.922, F.923, V.973, L.976, D.977, A.980, V.981, V.989, M.990, I.992, G.993, K.994, V.1109, W.1110, Q.1113, R.1114, F.1117
- Ligands: POV.20
14 PLIP interactions:14 interactions with chain B- Hydrophobic interactions: B:F.923, B:A.980, B:V.981, B:V.989, B:Q.1113, B:F.1117, B:F.1117
- Hydrogen bonds: B:Y.922, B:F.923, B:M.990, B:K.994, B:Q.1113, B:R.1114
- pi-Stacking: B:Y.922
3FD.39: 20 residues within 4Å:- Chain C: S.920, D.921, Y.922, F.923, V.973, L.976, D.977, A.980, V.981, V.989, M.990, I.992, G.993, K.994, V.1109, W.1110, Q.1113, R.1114, F.1117
- Ligands: POV.36
14 PLIP interactions:14 interactions with chain C- Hydrophobic interactions: C:F.923, C:A.980, C:V.981, C:V.989, C:Q.1113, C:F.1117, C:F.1117
- Hydrogen bonds: C:Y.922, C:F.923, C:M.990, C:K.994, C:Q.1113, C:R.1114
- pi-Stacking: C:Y.922
3FD.57: 20 residues within 4Å:- Chain D: S.920, D.921, Y.922, F.923, V.973, L.976, D.977, A.980, V.981, V.989, M.990, I.992, G.993, K.994, V.1109, W.1110, Q.1113, R.1114, F.1117
- Ligands: POV.55
14 PLIP interactions:14 interactions with chain D- Hydrophobic interactions: D:F.923, D:A.980, D:V.981, D:V.989, D:Q.1113, D:F.1117, D:F.1117
- Hydrogen bonds: D:Y.922, D:F.923, D:M.990, D:K.994, D:Q.1113, D:R.1114
- pi-Stacking: D:Y.922
- 4 x CLR: CHOLESTEROL(Non-covalent)
CLR.5: 15 residues within 4Å:- Chain A: Y.922, S.926, L.966, I.969, F.970, V.973
- Chain B: W.1070, L.1071, F.1074, L.1075, V.1078
- Ligands: POV.1, POV.6, POV.8, POV.19
11 PLIP interactions:5 interactions with chain B, 6 interactions with chain A- Hydrophobic interactions: B:W.1070, B:W.1070, B:L.1071, B:F.1074, B:L.1075, A:L.966, A:I.969, A:F.970, A:F.970, A:F.970
- Hydrogen bonds: A:Y.922
CLR.24: 15 residues within 4Å:- Chain B: Y.922, S.926, L.966, I.969, F.970, V.973
- Chain C: W.1070, L.1071, F.1074, L.1075, V.1078
- Ligands: POV.20, POV.25, POV.27, POV.35
10 PLIP interactions:4 interactions with chain C, 6 interactions with chain B- Hydrophobic interactions: C:W.1070, C:W.1070, C:L.1071, C:L.1075, B:L.966, B:I.969, B:F.970, B:F.970, B:F.970
- Hydrogen bonds: B:Y.922
CLR.40: 15 residues within 4Å:- Chain C: Y.922, S.926, L.966, I.969, F.970, V.973
- Chain D: W.1070, L.1071, F.1074, L.1075, V.1078
- Ligands: POV.36, POV.41, POV.43, POV.54
10 PLIP interactions:6 interactions with chain C, 4 interactions with chain D- Hydrophobic interactions: C:L.966, C:I.969, C:F.970, C:F.970, C:F.970, D:W.1070, D:W.1070, D:L.1071, D:L.1075
- Hydrogen bonds: C:Y.922
CLR.58: 15 residues within 4Å:- Chain A: W.1070, L.1071, F.1074, L.1075, V.1078
- Chain D: Y.922, S.926, L.966, I.969, F.970, V.973
- Ligands: POV.17, POV.55, POV.59, POV.61
10 PLIP interactions:6 interactions with chain D, 4 interactions with chain A- Hydrophobic interactions: D:L.966, D:I.969, D:F.970, D:F.970, D:F.970, A:W.1070, A:W.1070, A:L.1071, A:L.1075
- Hydrogen bonds: D:Y.922
- 4 x DU0: 2-[2-[(1~{S},2~{S},4~{S},5'~{R},6~{R},7~{S},8~{R},9~{S},12~{S},13~{R},16~{S})-5',7,9,13-tetramethylspiro[5-oxapentacyclo[10.8.0.0^{2,9}.0^{4,8}.0^{13,18}]icos-18-ene-6,2'-oxane]-16-yl]oxyethyl]propane-1,3-diol(Non-covalent)
DU0.13: 18 residues within 4Å:- Chain A: L.1011, P.1027, S.1028, W.1029, L.1031, A.1032, I.1035
- Chain D: L.863, L.866, M.867, T.870, F.871, L.874, Y.972, L.975
- Ligands: POV.19, POV.53, POV.65
10 PLIP interactions:6 interactions with chain D, 4 interactions with chain A- Hydrophobic interactions: D:L.863, D:M.867, D:T.870, D:F.871, D:F.871, D:Y.972, A:W.1029, A:A.1032, A:I.1035
- Hydrogen bonds: A:P.1027
DU0.32: 18 residues within 4Å:- Chain A: L.863, L.866, M.867, T.870, F.871, L.874, Y.972, L.975
- Chain B: L.1011, P.1027, S.1028, W.1029, L.1031, A.1032, I.1035
- Ligands: POV.12, POV.15, POV.35
10 PLIP interactions:6 interactions with chain A, 4 interactions with chain B- Hydrophobic interactions: A:L.863, A:M.867, A:T.870, A:F.871, A:F.871, A:Y.972, B:W.1029, B:A.1032, B:I.1035
- Hydrogen bonds: B:P.1027
DU0.48: 18 residues within 4Å:- Chain B: L.863, L.866, M.867, T.870, F.871, L.874, Y.972, L.975
- Chain C: L.1011, P.1027, S.1028, W.1029, L.1031, A.1032, I.1035
- Ligands: POV.31, POV.34, POV.54
10 PLIP interactions:4 interactions with chain C, 6 interactions with chain B- Hydrophobic interactions: C:W.1029, C:A.1032, C:I.1035, B:L.863, B:M.867, B:T.870, B:F.871, B:F.871, B:Y.972
- Hydrogen bonds: C:P.1027
DU0.51: 18 residues within 4Å:- Chain C: L.863, L.866, M.867, T.870, F.871, L.874, Y.972, L.975
- Chain D: L.1011, P.1027, S.1028, W.1029, L.1031, A.1032, I.1035
- Ligands: POV.17, POV.47, POV.50
10 PLIP interactions:6 interactions with chain C, 4 interactions with chain D- Hydrophobic interactions: C:L.863, C:M.867, C:T.870, C:F.871, C:F.871, C:Y.972, D:W.1029, D:A.1032, D:I.1035
- Hydrogen bonds: D:P.1027
- 1 x CA: CALCIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Nadezhdin, K.D. et al., Structural mechanisms of TRPM7 activation and inhibition. Nat Commun (2023)
- Release Date
- 2023-05-17
- Peptides
- Transient receptor potential cation channel subfamily M member 7: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- homo-tetramer
- Ligands
- 52 x POV: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate(Non-covalent)
- 4 x 3FD: 4-[[(2R,3S,4R,5R)-5-[6-amino-8-[(3,4-dichlorophenyl)methylamino]purin-9-yl]-3,4-dihydroxy-oxolan-2-yl]methoxymethyl]benzonitrile(Non-covalent)
- 4 x CLR: CHOLESTEROL(Non-covalent)
- 4 x DU0: 2-[2-[(1~{S},2~{S},4~{S},5'~{R},6~{R},7~{S},8~{R},9~{S},12~{S},13~{R},16~{S})-5',7,9,13-tetramethylspiro[5-oxapentacyclo[10.8.0.0^{2,9}.0^{4,8}.0^{13,18}]icos-18-ene-6,2'-oxane]-16-yl]oxyethyl]propane-1,3-diol(Non-covalent)
- 1 x CA: CALCIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Nadezhdin, K.D. et al., Structural mechanisms of TRPM7 activation and inhibition. Nat Commun (2023)
- Release Date
- 2023-05-17
- Peptides
- Transient receptor potential cation channel subfamily M member 7: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D - Membrane
-
We predict this structure to be a membrane protein.