- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.67 Å
- Oligo State
- homo-dimer
- Ligands
- 8 x ZN: ZINC ION(Non-covalent)
- 2 x SFG: SINEFUNGIN(Non-covalent)
SFG.5: 16 residues within 4Å:- Chain A: M.138, G.139, W.140, S.174, Y.175, R.199, F.200, I.201, N.202, H.203, Y.244, W.249, F.256, T.257, C.258, Q.259
12 PLIP interactions:12 interactions with chain A- Hydrophobic interactions: A:Y.244
- Hydrogen bonds: A:W.140, A:S.174, A:Y.175, A:R.199, A:N.202, A:N.202, A:H.203, A:H.203, A:Y.244, A:Q.259
- Water bridges: A:I.201
SFG.13: 16 residues within 4Å:- Chain B: M.138, G.139, W.140, S.174, Y.175, R.199, F.200, I.201, N.202, H.203, Y.244, W.249, F.256, T.257, C.258, Q.259
14 PLIP interactions:14 interactions with chain B- Hydrophobic interactions: B:Y.244
- Hydrogen bonds: B:W.140, B:S.174, B:Y.175, B:Y.175, B:R.199, B:N.202, B:N.202, B:H.203, B:H.203, B:Q.259, B:C.260
- Water bridges: B:I.201, B:Q.259
- 2 x I6S: 3,6,6-trimethyl-4-oxidanylidene-~{N}-[(2~{S})-1-oxidanylidene-1-phenylazanyl-hexan-2-yl]-5,7-dihydro-1~{H}-indole-2-carboxamide(Non-covalent)
I6S.6: 15 residues within 4Å:- Chain A: Y.157, D.173, S.174, L.176, F.177, D.178, D.180, P.211, R.213, F.242, D.243, Y.244, R.247, F.248, I.251
19 PLIP interactions:19 interactions with chain A- Hydrophobic interactions: A:D.173, A:F.177, A:F.177, A:D.180, A:F.242, A:Y.244, A:Y.244, A:F.248, A:I.251
- Hydrogen bonds: A:L.176, A:D.178, A:D.178, A:Y.244, A:R.247, A:F.248
- Water bridges: A:R.247, A:R.247
- pi-Stacking: A:F.177, A:F.248
I6S.14: 16 residues within 4Å:- Chain B: Y.157, D.173, S.174, Y.175, L.176, F.177, D.178, P.211, R.213, I.226, F.242, D.243, Y.244, R.247, F.248, I.251
15 PLIP interactions:15 interactions with chain B- Hydrophobic interactions: B:D.173, B:F.177, B:F.177, B:I.226, B:F.242, B:Y.244, B:Y.244, B:I.251
- Hydrogen bonds: B:L.176, B:D.178, B:D.178, B:Y.244, B:F.248
- Water bridges: B:R.247
- pi-Stacking: B:F.177
- 3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.7: 5 residues within 4Å:- Chain A: N.46, C.47, E.48, R.56
- Chain B: R.56
4 PLIP interactions:3 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:E.48, A:R.56
- Water bridges: A:R.56, B:R.56
EDO.15: 7 residues within 4Å:- Chain B: D.32, R.134, T.135, A.136, K.137, M.138, G.139
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:G.139, B:G.139
EDO.16: 6 residues within 4Å:- Chain B: N.46, I.54, L.161, H.218, F.223, R.225
7 PLIP interactions:7 interactions with chain B- Hydrogen bonds: B:N.46, B:F.223
- Water bridges: B:N.46, B:N.46, B:R.225, B:R.225, B:R.225
- 1 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Nishigaya, Y. et al., Discovery of Novel Substrate-Competitive Lysine Methyltransferase G9a Inhibitors as Anticancer Agents. J.Med.Chem. (2023)
- Release Date
- 2023-03-29
- Peptides
- Histone-lysine N-methyltransferase EHMT2: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.67 Å
- Oligo State
- homo-dimer
- Ligands
- 8 x ZN: ZINC ION(Non-covalent)
- 2 x SFG: SINEFUNGIN(Non-covalent)
- 2 x I6S: 3,6,6-trimethyl-4-oxidanylidene-~{N}-[(2~{S})-1-oxidanylidene-1-phenylazanyl-hexan-2-yl]-5,7-dihydro-1~{H}-indole-2-carboxamide(Non-covalent)
- 3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 1 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Nishigaya, Y. et al., Discovery of Novel Substrate-Competitive Lysine Methyltransferase G9a Inhibitors as Anticancer Agents. J.Med.Chem. (2023)
- Release Date
- 2023-03-29
- Peptides
- Histone-lysine N-methyltransferase EHMT2: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B