- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.07 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x FEW: 3-(2-imidazo[1,2-a]pyrazin-3-ylethynyl)-~{N}-[3-[(4-methylpiperazin-1-yl)methyl]-5-(trifluoromethyl)phenyl]-4-propan-2-yl-benzamide(Non-covalent)
- 6 x SO4: SULFATE ION(Non-functional Binders)
SO4.2: 4 residues within 4Å:- Chain A: S.190, R.191, N.192, L.193
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.192, A:L.193
SO4.3: 6 residues within 4Å:- Chain A: H.147, A.150, Q.151, S.154, H.304, A.308
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:A.150, A:S.154
- Salt bridges: A:H.147, A:H.304
SO4.4: 2 residues within 4Å:- Chain A: R.157, R.305
4 PLIP interactions:4 interactions with chain A- Water bridges: A:R.157, A:R.157
- Salt bridges: A:R.157, A:R.305
SO4.5: 5 residues within 4Å:- Chain A: R.274, P.276, A.277
- Chain B: G.203, R.204
4 PLIP interactions:2 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:A.277, B:R.204
- Salt bridges: A:R.274, B:R.204
SO4.17: 4 residues within 4Å:- Chain B: R.274, P.276, A.277, C.278
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:A.277, B:C.278
- Salt bridges: B:R.274
SO4.18: 4 residues within 4Å:- Chain B: W.236, F.247, L.272, S.273
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:F.247, B:S.273
- Water bridges: B:G.248, B:G.248
- 15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.6: 9 residues within 4Å:- Chain A: W.236, Q.245, P.246, F.247, G.248, L.272, S.273
- Chain B: K.73
- Ligands: EDO.13
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:Q.245, A:F.247, A:G.248, A:S.273, A:S.273
EDO.7: 5 residues within 4Å:- Chain A: W.229, F.247, Y.271, L.272, W.290
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:L.272
- Water bridges: A:R.210, A:W.229, A:N.258
EDO.8: 4 residues within 4Å:- Chain A: R.268
- Chain B: L.72, V.75, K.76
4 PLIP interactions:2 interactions with chain B, 2 interactions with chain A- Water bridges: B:S.79, B:S.79, A:R.268
- Hydrogen bonds: A:R.268
EDO.9: 4 residues within 4Å:- Chain A: R.80, L.162, N.163, F.164
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:R.80
EDO.10: 3 residues within 4Å:- Chain A: L.72, V.75, K.76
No protein-ligand interaction detected (PLIP)EDO.11: 1 residues within 4Å:- Chain A: R.13
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:R.13
EDO.12: 5 residues within 4Å:- Chain A: L.18, G.19, V.26, F.187
- Ligands: FEW.1
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:L.18
EDO.13: 4 residues within 4Å:- Chain A: W.236, M.240, S.273
- Ligands: EDO.6
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:S.273
EDO.14: 3 residues within 4Å:- Chain A: Y.142, A.277, P.279
No protein-ligand interaction detected (PLIP)EDO.15: 4 residues within 4Å:- Chain A: M.189, A.195, Y.198, R.200
2 PLIP interactions:2 interactions with chain A- Water bridges: A:G.196, A:Y.198
EDO.19: 6 residues within 4Å:- Chain B: W.229, F.247, V.270, Y.271, L.272, W.290
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:L.272
- Water bridges: B:W.229, B:N.258
EDO.20: 3 residues within 4Å:- Chain B: E.257, E.261, R.268
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:E.257, B:E.261, B:E.261
EDO.21: 4 residues within 4Å:- Chain B: M.189, A.195, Y.198, R.200
2 PLIP interactions:2 interactions with chain B- Water bridges: B:G.196, B:Y.198
EDO.22: 4 residues within 4Å:- Chain B: G.196, R.210, Q.245, D.252
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:Q.245, B:D.252
- Water bridges: B:R.210, B:D.252
EDO.23: 3 residues within 4Å:- Chain A: M.240
- Chain B: Q.202, A.205
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:Q.202
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Wang, Z. et al., Design, Synthesis, and Biological Evaluation of 3-(Imidazo[1,2- a]pyrazin-3-ylethynyl)-4-isopropyl- N-(3-((4-methylpiperazin-1-yl)methyl)-5-(trifluoromethyl)phenyl)benzamide as a Dual Inhibitor of Discoidin Domain Receptors 1 and 2. J. Med. Chem. (2018)
- Release Date
- 2018-08-08
- Peptides
- Epithelial discoidin domain-containing receptor 1: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.07 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x FEW: 3-(2-imidazo[1,2-a]pyrazin-3-ylethynyl)-~{N}-[3-[(4-methylpiperazin-1-yl)methyl]-5-(trifluoromethyl)phenyl]-4-propan-2-yl-benzamide(Non-covalent)
- 6 x SO4: SULFATE ION(Non-functional Binders)
- 15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Wang, Z. et al., Design, Synthesis, and Biological Evaluation of 3-(Imidazo[1,2- a]pyrazin-3-ylethynyl)-4-isopropyl- N-(3-((4-methylpiperazin-1-yl)methyl)-5-(trifluoromethyl)phenyl)benzamide as a Dual Inhibitor of Discoidin Domain Receptors 1 and 2. J. Med. Chem. (2018)
- Release Date
- 2018-08-08
- Peptides
- Epithelial discoidin domain-containing receptor 1: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B