- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.05 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x H6W: ~{N}-[3-(1,3-benzodioxol-5-yl)pyrazolo[1,5-a]pyrimidin-5-yl]-~{N}',~{N}'-dimethyl-propane-1,3-diamine(Non-covalent)
- 5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.2: 2 residues within 4Å:- Chain A: L.147
- Ligands: FMT.11
No protein-ligand interaction detected (PLIP)EDO.3: 4 residues within 4Å:- Chain A: G.268, H.269, R.270, E.272
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:G.268, A:R.270, A:E.272
EDO.14: 7 residues within 4Å:- Chain B: R.22, C.95, Q.97, D.98, G.99, P.100, L.102
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:D.98, B:P.100
EDO.15: 4 residues within 4Å:- Chain B: D.199, V.200, Y.201, E.202
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:D.199, B:E.202
EDO.16: 2 residues within 4Å:- Chain B: K.41, T.55
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:K.41, B:K.41, B:T.55
- Water bridges: B:T.55
- 15 x FMT: FORMIC ACID(Non-functional Binders)
FMT.4: 8 residues within 4Å:- Chain A: G.1, P.2, L.3, S.4
- Chain B: Q.211, L.224, F.225, H.227
5 PLIP interactions:3 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:G.1, A:L.3, A:S.4, B:Q.211, B:L.224
FMT.5: 4 residues within 4Å:- Chain A: S.4, L.5, D.8
- Chain B: K.266
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain B- Water bridges: A:G.1, A:G.1, B:K.266
FMT.6: 3 residues within 4Å:- Chain A: V.26, T.43, Y.53
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:T.43, A:T.43
FMT.7: 6 residues within 4Å:- Chain A: Q.164, A.167, T.231, V.298, F.299, A.300
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:F.299, A:A.300
FMT.8: 4 residues within 4Å:- Chain A: K.23, N.24, F.45, Y.53
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:K.23
- Water bridges: A:F.45
FMT.9: 6 residues within 4Å:- Chain A: P.2, L.3, S.6, R.71, L.74, S.75
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:P.2, A:S.6, A:S.75
FMT.10: 6 residues within 4Å:- Chain A: E.76, M.105, S.192, D.193, F.194
- Ligands: H6W.1
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:E.76, A:D.193, A:F.194
FMT.11: 6 residues within 4Å:- Chain A: S.120, R.145, A.146, L.147, L.248
- Ligands: EDO.2
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.145, A:L.147
FMT.17: 4 residues within 4Å:- Chain B: R.22, L.25, V.26, L.27
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:R.22, B:R.22, B:L.27
FMT.18: 8 residues within 4Å:- Chain B: R.174, L.196, R.198, K.208, G.212, R.213, I.214, Y.229
7 PLIP interactions:7 interactions with chain B- Hydrogen bonds: B:R.174, B:R.174, B:R.198, B:K.208, B:R.213, B:R.213, B:R.213
FMT.19: 5 residues within 4Å:- Chain B: A.167, T.231, Q.232, V.298, F.299
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:F.299
- Water bridges: B:A.300
FMT.20: 4 residues within 4Å:- Chain B: I.153, S.278, M.309, R.313
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:S.278, B:R.313
FMT.21: 5 residues within 4Å:- Chain B: K.29, L.31, K.41, Y.107, K.109
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:K.29, B:Y.107, B:K.109
FMT.22: 2 residues within 4Å:- Chain B: I.221, D.226
No protein-ligand interaction detected (PLIP)FMT.23: 3 residues within 4Å:- Chain B: H.85, Q.161, Y.165
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Q.161, B:Y.165
- 1 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Newton, R. et al., Discovery and Optimization of wt-RET/KDR-Selective Inhibitors of RETV804MKinase. Acs Med.Chem.Lett. (2020)
- Release Date
- 2020-03-11
- Peptides
- Proto-oncogene tyrosine-protein kinase receptor Ret: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.05 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x H6W: ~{N}-[3-(1,3-benzodioxol-5-yl)pyrazolo[1,5-a]pyrimidin-5-yl]-~{N}',~{N}'-dimethyl-propane-1,3-diamine(Non-covalent)
- 5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 15 x FMT: FORMIC ACID(Non-functional Binders)
- 1 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Newton, R. et al., Discovery and Optimization of wt-RET/KDR-Selective Inhibitors of RETV804MKinase. Acs Med.Chem.Lett. (2020)
- Release Date
- 2020-03-11
- Peptides
- Proto-oncogene tyrosine-protein kinase receptor Ret: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B