- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.27 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 1 x Q4T: 2-[2-[[3-[4-chloranyl-2-fluoranyl-5-[(3~{R})-piperidin-3-yl]oxy-phenyl]-2-fluoranyl-phenyl]carbonylamino]-5-fluoranyl-phenyl]ethanoic acid(Non-covalent)
Q4T.1: 15 residues within 4Å:- Chain A: Y.33, L.82, S.85, Y.86, G.89, N.90, W.91, C.98, N.101, R.102, L.105, C.175, Y.251, R.283, F.287
18 PLIP interactions:18 interactions with chain A- Hydrophobic interactions: A:L.82, A:Y.86, A:W.91, A:W.91, A:W.91, A:N.101, A:R.102, A:L.105, A:F.287
- Hydrogen bonds: A:Y.33, A:R.102
- Water bridges: A:R.102, A:R.102, A:R.102
- Salt bridges: A:R.283
- pi-Cation interactions: A:R.102, A:R.283
- Halogen bonds: A:Y.86
- 12 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)
OLC.2: 14 residues within 4Å:- Chain A: S.60, Y.64, F.118, I.121, D.122, L.125, L.136, Q.137, F.141, I.145, A.148, V.149
- Ligands: OLC.3, OLC.7
9 PLIP interactions:9 interactions with chain A- Hydrophobic interactions: A:F.118, A:F.118, A:F.118, A:A.148, A:V.149
- Hydrogen bonds: A:S.60, A:Y.64, A:D.122, A:D.122
OLC.3: 11 residues within 4Å:- Chain A: L.114, I.121, Y.124, L.125, K.128, L.136, F.208, F.209, K.212
- Ligands: OLC.2, OLC.7
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:L.114, A:I.121, A:L.136
- Water bridges: A:K.212, A:K.212
OLC.4: 7 residues within 4Å:- Chain A: P.159, F.163, G.182, N.183, Y.186, S.187, Y.190
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:Y.186
- Hydrogen bonds: A:N.183
- Water bridges: A:S.166
OLC.5: 8 residues within 4Å:- Chain A: K.56, W.58, N.67, K.139, S.146, L.147, W.150
- Ligands: OLC.8
6 PLIP interactions:6 interactions with chain A- Hydrophobic interactions: A:W.58, A:W.150, A:W.150, A:W.150
- Hydrogen bonds: A:K.56
- Salt bridges: A:K.139
OLC.6: 10 residues within 4Å:- Chain A: I.70, A.74, C.77, T.78, M.81, L.97, S.100, N.101, V.104
- Ligands: OLC.13
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:I.70, A:A.74
- Hydrogen bonds: A:N.101
OLC.7: 8 residues within 4Å:- Chain A: L.152, I.201, S.204, V.205, C.207, Y.211
- Ligands: OLC.2, OLC.3
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:L.152, A:I.201, A:V.205
- Water bridges: A:C.207
OLC.8: 6 residues within 4Å:- Chain A: Y.51, L.52, M.55, W.58, F.66
- Ligands: OLC.5
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:L.52
OLC.9: 7 residues within 4Å:- Chain A: L.192, T.195, H.252, I.253, N.256, V.257, A.260
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:T.195, A:H.252, A:I.253
- Hydrogen bonds: A:N.256
OLC.10: 4 residues within 4Å:- Chain A: K.185, L.188, I.189, L.192
1 PLIP interactions:1 interactions with chain A- Hydrophobic interactions: A:L.192
OLC.11: 9 residues within 4Å:- Chain A: Y.28, F.32, I.253, M.254, V.257, I.275, L.278, T.282
- Ligands: OLC.12
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:F.32
- Water bridges: A:S.271
OLC.12: 7 residues within 4Å:- Chain A: W.17, C.270, S.271, A.274, L.278, L.281
- Ligands: OLC.11
6 PLIP interactions:6 interactions with chain A- Hydrophobic interactions: A:W.17, A:W.17, A:A.274, A:L.278, A:L.281
- Water bridges: A:C.270
OLC.13: 9 residues within 4Å:- Chain A: Y.93, G.94, D.95, V.96, L.97, S.100, Y.103, V.104
- Ligands: OLC.6
8 PLIP interactions:8 interactions with chain A- Hydrophobic interactions: A:L.97, A:Y.103, A:Y.103, A:Y.103, A:V.104
- Hydrogen bonds: A:G.94, A:V.96, A:L.97
- 1 x SO4: SULFATE ION(Non-functional Binders)
SO4.14: 3 residues within 4Å:- Chain A: H.134, I.135, L.136
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:I.135, A:L.136
- Salt bridges: A:H.134
- 1 x CL: CHLORIDE ION(Non-functional Binders)
CL.15: 3 residues within 4Å:- Chain A: D.177, S.180, S.181
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Velcicky, J. et al., Discovery and Optimization of Novel SUCNR1 Inhibitors: Design of Zwitterionic Derivatives with a Salt Bridge for the Improvement of Oral Exposure. J.Med.Chem. (2020)
- Release Date
- 2020-09-16
- Peptides
- Succinate receptor 1: A
Nanobody6: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.27 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 1 x Q4T: 2-[2-[[3-[4-chloranyl-2-fluoranyl-5-[(3~{R})-piperidin-3-yl]oxy-phenyl]-2-fluoranyl-phenyl]carbonylamino]-5-fluoranyl-phenyl]ethanoic acid(Non-covalent)
- 12 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)
- 1 x SO4: SULFATE ION(Non-functional Binders)
- 1 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Velcicky, J. et al., Discovery and Optimization of Novel SUCNR1 Inhibitors: Design of Zwitterionic Derivatives with a Salt Bridge for the Improvement of Oral Exposure. J.Med.Chem. (2020)
- Release Date
- 2020-09-16
- Peptides
- Succinate receptor 1: A
Nanobody6: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B - Membrane
-
We predict this structure to be a membrane protein.