- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.99 Å
- Oligo State
- homo-pentamer
- Ligands
- 10 x ACT: ACETATE ION(Non-functional Binders)
- 10 x PLC: DIUNDECYL PHOSPHATIDYL CHOLINE(Non-covalent)(Non-functional Binders)
PLC.2: 10 residues within 4Å:- Chain A: R.122, F.125, Y.198, I.202, I.206, L.210, Y.258, N.311, F.319
- Ligands: PLC.3
8 PLIP interactions:8 interactions with chain A- Hydrophobic interactions: A:F.125, A:Y.198, A:I.202, A:I.206, A:L.210, A:Y.258
- Hydrogen bonds: A:R.122, A:Y.258
PLC.3: 1 residues within 4Å:- Ligands: PLC.2
No protein-ligand interaction detected (PLIP)PLC.13: 9 residues within 4Å:- Chain B: R.122, F.125, Y.198, I.206, Y.258, I.262, N.311, F.319
- Ligands: PLC.14
10 PLIP interactions:10 interactions with chain B- Hydrophobic interactions: B:F.125, B:F.125, B:F.125, B:Y.198, B:I.206, B:Y.258, B:I.262, B:I.262
- Hydrogen bonds: B:R.122, B:Y.258
PLC.14: 1 residues within 4Å:- Ligands: PLC.13
No protein-ligand interaction detected (PLIP)PLC.23: 9 residues within 4Å:- Chain C: R.122, F.125, Y.198, I.206, L.210, Y.258, N.311, F.319
- Ligands: PLC.24
7 PLIP interactions:7 interactions with chain C- Hydrophobic interactions: C:F.125, C:F.125, C:Y.198, C:I.206, C:L.210, C:Y.258
- Hydrogen bonds: C:Y.258
PLC.24: 1 residues within 4Å:- Ligands: PLC.23
No protein-ligand interaction detected (PLIP)PLC.34: 10 residues within 4Å:- Chain D: R.122, F.125, Y.198, I.206, L.207, L.210, Y.258, N.311, F.319
- Ligands: PLC.35
8 PLIP interactions:8 interactions with chain D- Hydrophobic interactions: D:F.125, D:F.125, D:Y.198, D:I.206, D:L.207, D:L.210, D:Y.258
- Hydrogen bonds: D:R.122
PLC.35: 1 residues within 4Å:- Ligands: PLC.34
No protein-ligand interaction detected (PLIP)PLC.44: 10 residues within 4Å:- Chain E: R.122, F.125, Y.198, I.202, I.206, L.210, Y.258, N.311, F.319
- Ligands: PLC.45
7 PLIP interactions:7 interactions with chain E- Hydrophobic interactions: E:F.125, E:F.125, E:I.202, E:I.206, E:L.210, E:Y.258
- Hydrogen bonds: E:R.122
PLC.45: 1 residues within 4Å:- Ligands: PLC.44
No protein-ligand interaction detected (PLIP)- 10 x UNL: UNKNOWN LIGAND
UNL.4: 2 residues within 4Å:- Chain A: F.271, I.275
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:F.271, A:I.275
UNL.5: 8 residues within 4Å:- Chain A: F.214, W.217, T.218, W.221
- Chain B: I.275, V.279, Y.282
- Ligands: UNL.15
7 PLIP interactions:3 interactions with chain B, 4 interactions with chain A- Hydrophobic interactions: B:I.275, B:V.279, B:Y.282, A:W.217, A:T.218, A:W.221, A:W.221
UNL.15: 3 residues within 4Å:- Chain B: F.271, I.275
- Ligands: UNL.5
2 PLIP interactions:2 interactions with chain B- Hydrophobic interactions: B:F.271, B:I.275
UNL.16: 8 residues within 4Å:- Chain B: F.214, T.218, W.221
- Chain C: I.275, T.278, V.279, Y.282
- Ligands: UNL.25
4 PLIP interactions:2 interactions with chain C, 2 interactions with chain B- Hydrophobic interactions: C:V.279, C:Y.282, B:T.218, B:W.221
UNL.25: 3 residues within 4Å:- Chain C: F.271, I.275
- Ligands: UNL.16
2 PLIP interactions:2 interactions with chain C- Hydrophobic interactions: C:F.271, C:I.275
UNL.26: 8 residues within 4Å:- Chain C: F.214, T.218, W.221
- Chain D: I.275, T.278, V.279, Y.282
- Ligands: UNL.36
5 PLIP interactions:3 interactions with chain C, 2 interactions with chain D- Hydrophobic interactions: C:F.214, C:T.218, C:W.221, D:T.278, D:Y.282
UNL.36: 3 residues within 4Å:- Chain D: F.271, I.275
- Ligands: UNL.26
2 PLIP interactions:2 interactions with chain D- Hydrophobic interactions: D:F.271, D:I.275
UNL.37: 6 residues within 4Å:- Chain D: F.214, T.218, W.221
- Chain E: I.275, V.279, Y.282
7 PLIP interactions:4 interactions with chain D, 3 interactions with chain E- Hydrophobic interactions: D:F.214, D:T.218, D:W.221, D:W.221, E:I.275, E:V.279, E:Y.282
UNL.46: 2 residues within 4Å:- Chain E: F.271, I.275
2 PLIP interactions:2 interactions with chain E- Hydrophobic interactions: E:F.271, E:I.275
UNL.47: 6 residues within 4Å:- Chain A: I.275, V.279, Y.282
- Chain E: F.214, T.218, W.221
5 PLIP interactions:2 interactions with chain A, 3 interactions with chain E- Hydrophobic interactions: A:I.275, A:Y.282, E:F.214, E:T.218, E:W.221
- 5 x CL: CHLORIDE ION(Non-functional Binders)
CL.6: 4 residues within 4Å:- Chain A: R.81, F.82, A.88, R.89
Ligand excluded by PLIPCL.17: 3 residues within 4Å:- Chain B: R.81, F.82, R.89
Ligand excluded by PLIPCL.27: 2 residues within 4Å:- Chain C: F.82, R.89
Ligand excluded by PLIPCL.38: 3 residues within 4Å:- Chain D: R.81, F.82, R.89
Ligand excluded by PLIPCL.48: 3 residues within 4Å:- Chain E: R.81, F.82, R.89
Ligand excluded by PLIP- 6 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-functional Binders)(Non-covalent)
LMT.8: 4 residues within 4Å:- Ligands: LMT.9, LMT.19, LMT.29, LMT.50
No protein-ligand interaction detected (PLIP)LMT.9: 7 residues within 4Å:- Chain A: I.237, A.241, I.244
- Chain B: T.248
- Chain E: A.241
- Ligands: LMT.8, LMT.19
5 PLIP interactions:1 interactions with chain E, 3 interactions with chain A, 1 interactions with chain B- Hydrophobic interactions: E:A.241, A:I.237, A:A.241, A:I.244, B:T.248
LMT.19: 7 residues within 4Å:- Chain A: A.241
- Chain B: I.237, A.241, L.245
- Chain C: T.248
- Ligands: LMT.8, LMT.9
5 PLIP interactions:3 interactions with chain B, 1 interactions with chain C, 1 interactions with chain A- Hydrophobic interactions: B:I.237, B:A.241, B:L.245, C:T.248, A:A.241
LMT.29: 5 residues within 4Å:- Chain B: A.241
- Chain C: I.237, A.241, I.244
- Ligands: LMT.8
4 PLIP interactions:3 interactions with chain C, 1 interactions with chain B- Hydrophobic interactions: C:I.237, C:I.244, C:I.244, B:A.241
LMT.40: 5 residues within 4Å:- Chain C: A.241
- Chain D: I.237, A.241, I.244, L.245
3 PLIP interactions:1 interactions with chain C, 2 interactions with chain D- Hydrophobic interactions: C:A.241, D:I.237, D:I.244
LMT.50: 6 residues within 4Å:- Chain D: A.241
- Chain E: I.237, A.241, I.244, T.248
- Ligands: LMT.8
4 PLIP interactions:1 interactions with chain D, 3 interactions with chain E- Hydrophobic interactions: D:A.241, E:I.237, E:A.241, E:I.244
- 6 x NA: SODIUM ION(Non-functional Binders)
NA.10: 5 residues within 4Å:- Chain A: V.9, P.72, I.75, W.76, I.77
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:I.75, A:I.77
NA.20: 3 residues within 4Å:- Chain B: P.72, I.75, I.77
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:P.72, B:I.77
NA.30: 1 residues within 4Å:- Chain C: T.230
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:T.230, C:T.230
NA.31: 3 residues within 4Å:- Chain C: V.9, P.72, I.75
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:P.72, C:I.77
NA.41: 5 residues within 4Å:- Chain D: V.9, P.72, I.75, W.76, I.77
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:P.72, D:I.77
NA.51: 5 residues within 4Å:- Chain E: V.9, P.72, I.75, W.76, I.77
2 PLIP interactions:2 interactions with chain E- Hydrogen bonds: E:I.75, E:I.77
- 5 x SO4: SULFATE ION(Non-functional Binders)
SO4.11: 2 residues within 4Å:- Chain A: R.113
- Chain E: S.33
3 PLIP interactions:1 interactions with chain A, 2 interactions with chain E- Salt bridges: A:R.113
- Hydrogen bonds: E:S.33, E:S.33
SO4.21: 3 residues within 4Å:- Chain A: S.33
- Chain B: A.38, R.113
2 PLIP interactions:1 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:S.33
- Salt bridges: B:R.113
SO4.32: 3 residues within 4Å:- Chain B: S.33, K.42
- Chain C: R.113
3 PLIP interactions:1 interactions with chain C, 2 interactions with chain B- Salt bridges: C:R.113
- Hydrogen bonds: B:S.33, B:S.33
SO4.42: 3 residues within 4Å:- Chain C: S.33, K.42
- Chain D: R.113
3 PLIP interactions:2 interactions with chain C, 1 interactions with chain D- Hydrogen bonds: C:S.33
- Salt bridges: C:K.42, D:R.113
SO4.52: 4 residues within 4Å:- Chain D: S.33
- Chain E: D.35, A.38, R.113
2 PLIP interactions:1 interactions with chain D, 1 interactions with chain E- Hydrogen bonds: D:S.33
- Salt bridges: E:R.113
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Sauguet, L. et al., Structural basis for ion permeation mechanism in pentameric ligand-gated ion channels. Embo J. (2013)
- Release Date
- 2013-02-20
- Peptides
- Proton-gated ion channel: ABCDE
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
E - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.99 Å
- Oligo State
- homo-pentamer
- Ligands
- 10 x ACT: ACETATE ION(Non-functional Binders)
- 10 x PLC: DIUNDECYL PHOSPHATIDYL CHOLINE(Non-covalent)(Non-functional Binders)
- 10 x UNL: UNKNOWN LIGAND
- 5 x CL: CHLORIDE ION(Non-functional Binders)
- 6 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-functional Binders)(Non-covalent)
- 6 x NA: SODIUM ION(Non-functional Binders)
- 5 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Sauguet, L. et al., Structural basis for ion permeation mechanism in pentameric ligand-gated ion channels. Embo J. (2013)
- Release Date
- 2013-02-20
- Peptides
- Proton-gated ion channel: ABCDE
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
E - Membrane
-
We predict this structure to be a membrane protein.