- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- homo-dimer
- Ligands
- 3 x ACT: ACETATE ION(Non-functional Binders)
- 10 x ZN: ZINC ION(Non-covalent)
ZN.3: 2 residues within 4Å:- Chain A: D.242, H.245
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:D.242, A:D.242, A:H.245
ZN.4: 1 residues within 4Å:- Chain A: H.47
No protein-ligand interaction detected (PLIP)ZN.5: 2 residues within 4Å:- Chain A: H.82
- Ligands: SO4.10
1 PLIP interactions:1 interactions with chain A- Metal complexes: A:H.82
ZN.6: 2 residues within 4Å:- Chain A: H.245, E.249
1 PLIP interactions:1 interactions with chain A- Metal complexes: A:E.249
ZN.17: 2 residues within 4Å:- Chain B: H.245, E.249
3 PLIP interactions:2 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:H.245, B:E.249, H2O.2
ZN.18: 2 residues within 4Å:- Chain B: E.44, H.47
2 PLIP interactions:2 interactions with chain B- Metal complexes: B:E.44, B:H.47
ZN.19: 3 residues within 4Å:- Chain B: D.242, H.245
- Ligands: SO4.26
1 PLIP interactions:1 interactions with chain B- Metal complexes: B:D.242
ZN.20: 2 residues within 4Å:- Chain B: H.82
- Ligands: ZN.22
2 PLIP interactions:1 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:H.82, H2O.2
ZN.21: 1 residues within 4Å:- Chain B: H.47
1 PLIP interactions:1 interactions with chain B- Metal complexes: B:H.47
ZN.22: 2 residues within 4Å:- Chain B: H.82
- Ligands: ZN.20
No protein-ligand interaction detected (PLIP)- 4 x CL: CHLORIDE ION(Non-functional Binders)
CL.7: 2 residues within 4Å:- Chain A: M.20, F.21
Ligand excluded by PLIPCL.8: 2 residues within 4Å:- Chain A: P.167, S.168
Ligand excluded by PLIPCL.23: 4 residues within 4Å:- Chain A: F.103, K.105, R.228
- Chain B: K.105
Ligand excluded by PLIPCL.24: 2 residues within 4Å:- Chain B: M.20, F.21
Ligand excluded by PLIP- 6 x SO4: SULFATE ION(Non-functional Binders)
SO4.9: 2 residues within 4Å:- Chain A: H.245
- Ligands: GOL.30
1 PLIP interactions:1 interactions with chain A- Salt bridges: A:H.245
SO4.10: 2 residues within 4Å:- Chain A: H.82
- Ligands: ZN.5
1 PLIP interactions:1 interactions with chain A- Salt bridges: A:H.82
SO4.11: 6 residues within 4Å:- Chain A: R.33, F.34, I.55, R.56, L.57
- Ligands: GOL.15
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:L.57
- Salt bridges: A:R.33
SO4.12: 4 residues within 4Å:- Chain A: R.22, S.24, R.26, L.28
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:S.24, A:S.24
- Salt bridges: A:R.22, A:R.26
SO4.25: 3 residues within 4Å:- Chain B: S.24, D.25, R.26
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:D.25, B:R.26
- Salt bridges: B:R.26
SO4.26: 6 residues within 4Å:- Chain A: L.211, I.212, D.213
- Chain B: D.242, H.245
- Ligands: ZN.19
1 PLIP interactions:1 interactions with chain B- Salt bridges: B:H.245
- 1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 2 x KAI: 3-(CARBOXYMETHYL)-4-ISOPROPENYLPROLINE(Non-covalent)
KAI.14: 12 residues within 4Å:- Chain A: E.15, Y.63, P.90, L.91, T.92, R.97, V.139, G.142, A.143, T.144, N.174, E.191
13 PLIP interactions:13 interactions with chain A- Hydrophobic interactions: A:Y.63, A:V.139
- Hydrogen bonds: A:P.90, A:T.92, A:A.143, A:T.144, A:E.191
- Water bridges: A:V.139, A:M.145, A:M.145, A:E.191, A:E.191
- Salt bridges: A:R.97
KAI.27: 13 residues within 4Å:- Chain B: E.15, Y.63, P.90, L.91, T.92, R.97, V.139, G.142, A.143, T.144, N.174, E.191, Y.217
10 PLIP interactions:10 interactions with chain B- Hydrophobic interactions: B:Y.63, B:V.139
- Hydrogen bonds: B:T.92, B:T.92, B:A.143, B:T.144, B:T.144, B:E.191
- Salt bridges: B:R.97, B:K.215
- 4 x GOL: GLYCEROL(Non-functional Binders)
GOL.15: 3 residues within 4Å:- Chain A: L.57, E.59
- Ligands: SO4.11
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:L.57, A:E.59
GOL.28: 3 residues within 4Å:- Chain B: G.30, N.31, E.54
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:N.31
GOL.29: 4 residues within 4Å:- Chain B: H.47, I.48, L.49, G.50
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:H.47
GOL.30: 6 residues within 4Å:- Chain A: D.242, H.245
- Chain B: L.211, I.212, D.213
- Ligands: SO4.9
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Bay, Y. et al., Small-molecule positive allosteric modulation of homomeric kainate receptors GluK1-3: development of screening assays and insight into GluK3 structure. Febs J. (2024)
- Release Date
- 2023-12-13
- Peptides
- Glutamate receptor ionotropic, kainate 3: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- homo-dimer
- Ligands
- 3 x ACT: ACETATE ION(Non-functional Binders)
- 10 x ZN: ZINC ION(Non-covalent)
- 4 x CL: CHLORIDE ION(Non-functional Binders)
- 6 x SO4: SULFATE ION(Non-functional Binders)
- 1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 2 x KAI: 3-(CARBOXYMETHYL)-4-ISOPROPENYLPROLINE(Non-covalent)
- 4 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Bay, Y. et al., Small-molecule positive allosteric modulation of homomeric kainate receptors GluK1-3: development of screening assays and insight into GluK3 structure. Febs J. (2024)
- Release Date
- 2023-12-13
- Peptides
- Glutamate receptor ionotropic, kainate 3: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B