- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.82 Å
- Oligo State
- hetero-4-4-mer
- Ligands
- 4 x 01: 2-(cyclobutylamino)-N-[(2S)-2-hydroxy-3-{6-[(1H-pyrazol-4-yl)methoxy]-3,4-dihydroisoquinolin-2(1H)-yl}propyl]pyridine-4-carboxamide
01.1: 21 residues within 4Å:- Chain A: Y.312, Q.317, L.327, Y.332, F.335, E.336, K.341, Y.342, G.375, R.376, P.378, E.443, G.446, S.447, E.452, V.511, F.585, S.586, W.587, F.588
- Ligands: MTA.2
18 PLIP interactions:18 interactions with chain A- Hydrophobic interactions: A:Y.312, A:L.327, A:Y.332, A:F.335, A:F.588, A:F.588
- Hydrogen bonds: A:E.336, A:E.336, A:R.376, A:S.447, A:S.447, A:E.452, A:F.585, A:F.588
- Salt bridges: A:E.452
- pi-Stacking: A:F.335, A:F.335
- pi-Cation interactions: A:F.335
01.6: 21 residues within 4Å:- Chain C: Y.312, Q.317, L.327, Y.332, F.335, E.336, K.341, Y.342, G.375, R.376, P.378, E.443, G.446, S.447, E.452, V.511, F.585, S.586, W.587, F.588
- Ligands: MTA.7
18 PLIP interactions:18 interactions with chain C- Hydrophobic interactions: C:Y.312, C:L.327, C:Y.332, C:F.335, C:F.588, C:F.588
- Hydrogen bonds: C:E.336, C:E.336, C:R.376, C:S.447, C:S.447, C:E.452, C:F.585, C:F.588
- Salt bridges: C:E.452
- pi-Stacking: C:F.335, C:F.335
- pi-Cation interactions: C:F.335
01.11: 21 residues within 4Å:- Chain E: Y.312, Q.317, L.327, Y.332, F.335, E.336, K.341, Y.342, G.375, R.376, P.378, E.443, G.446, S.447, E.452, V.511, F.585, S.586, W.587, F.588
- Ligands: MTA.12
17 PLIP interactions:17 interactions with chain E- Hydrophobic interactions: E:Y.312, E:L.327, E:Y.332, E:F.335, E:F.588, E:F.588
- Hydrogen bonds: E:E.336, E:R.376, E:S.447, E:S.447, E:E.452, E:F.585, E:F.588
- Salt bridges: E:E.452
- pi-Stacking: E:F.335, E:F.335
- pi-Cation interactions: E:F.335
01.16: 21 residues within 4Å:- Chain G: Y.312, Q.317, L.327, Y.332, F.335, E.336, K.341, Y.342, G.375, R.376, P.378, E.443, G.446, S.447, E.452, V.511, F.585, S.586, W.587, F.588
- Ligands: MTA.17
17 PLIP interactions:17 interactions with chain G- Hydrophobic interactions: G:Y.312, G:L.327, G:Y.332, G:F.335, G:F.588, G:F.588
- Hydrogen bonds: G:E.336, G:R.376, G:S.447, G:S.447, G:E.452, G:F.585, G:F.588
- Salt bridges: G:E.452
- pi-Stacking: G:F.335, G:F.335
- pi-Cation interactions: G:F.335
- 4 x MTA: 5'-DEOXY-5'-METHYLTHIOADENOSINE(Non-covalent)
- 4 x GOL: GLYCEROL(Non-functional Binders)
GOL.3: 5 residues within 4Å:- Chain A: S.23, D.47, F.48, T.88, Q.271
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:S.23, A:D.47, A:D.47, A:Q.271
GOL.8: 5 residues within 4Å:- Chain C: S.23, D.47, F.48, T.88, Q.271
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:S.23, C:D.47, C:D.47, C:Q.271
GOL.13: 5 residues within 4Å:- Chain E: S.23, D.47, F.48, T.88, Q.271
3 PLIP interactions:3 interactions with chain E- Hydrogen bonds: E:S.23, E:D.47, E:Q.271
GOL.18: 5 residues within 4Å:- Chain G: S.23, D.47, F.48, T.88, Q.271
3 PLIP interactions:3 interactions with chain G- Hydrogen bonds: G:S.23, G:D.47, G:Q.271
- 8 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.4: 8 residues within 4Å:- Chain A: E.137, D.138, N.139, T.140, N.199, L.203
- Chain C: R.609, T.626
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:E.137, A:E.137, A:D.138, A:N.139, A:T.140
EDO.5: 5 residues within 4Å:- Chain A: E.336, R.376, G.377, P.378, N.381
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.376, A:N.381
EDO.9: 8 residues within 4Å:- Chain A: R.609, T.626
- Chain C: E.137, D.138, N.139, T.140, N.199, L.203
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:E.137, C:E.137, C:D.138, C:N.139, C:T.140
EDO.10: 5 residues within 4Å:- Chain C: E.336, R.376, G.377, P.378, N.381
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:R.376, C:N.381
EDO.14: 8 residues within 4Å:- Chain E: E.137, D.138, N.139, T.140, N.199, L.203
- Chain G: R.609, T.626
3 PLIP interactions:3 interactions with chain E- Hydrogen bonds: E:E.137, E:N.139, E:T.140
EDO.15: 5 residues within 4Å:- Chain E: E.336, R.376, G.377, P.378, N.381
2 PLIP interactions:2 interactions with chain E- Hydrogen bonds: E:R.376, E:N.381
EDO.19: 8 residues within 4Å:- Chain E: R.609, T.626
- Chain G: E.137, D.138, N.139, T.140, N.199, L.203
3 PLIP interactions:3 interactions with chain G- Hydrogen bonds: G:E.137, G:N.139, G:T.140
EDO.20: 5 residues within 4Å:- Chain G: E.336, R.376, G.377, P.378, N.381
2 PLIP interactions:2 interactions with chain G- Hydrogen bonds: G:R.376, G:N.381
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Cottrell, K.M. et al., MTA-Cooperative PRMT5 Inhibitors: Mechanism Switching Through Structure-Based Design. J.Med.Chem. (2025)
- Release Date
- 2025-03-05
- Peptides
- Protein arginine N-methyltransferase 5: ACEG
Methylosome protein 50: BDFH - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
AE
AG
AB
BD
BF
BH
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.82 Å
- Oligo State
- hetero-4-4-mer
- Ligands
- 4 x 01: 2-(cyclobutylamino)-N-[(2S)-2-hydroxy-3-{6-[(1H-pyrazol-4-yl)methoxy]-3,4-dihydroisoquinolin-2(1H)-yl}propyl]pyridine-4-carboxamide
- 4 x MTA: 5'-DEOXY-5'-METHYLTHIOADENOSINE(Non-covalent)
- 4 x GOL: GLYCEROL(Non-functional Binders)
- 8 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Cottrell, K.M. et al., MTA-Cooperative PRMT5 Inhibitors: Mechanism Switching Through Structure-Based Design. J.Med.Chem. (2025)
- Release Date
- 2025-03-05
- Peptides
- Protein arginine N-methyltransferase 5: ACEG
Methylosome protein 50: BDFH - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
AE
AG
AB
BD
BF
BH
B