SMTL ID : 7kic.1

PRMT5:MEP50 Complexed with 5,5-Bicyclic Inhibitor Compound 34

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.43 Å

Oligo State

hetero-1-1-mer

Ligands

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 8 residues within 4Å: Chain A: W.194, D.227, R.228, L.230, E.232, S.484, H.518, T.554 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.232, A:S.484, A:H.518 EDO.2: 6 residues within 4Å: Chain A: E.137, D.138, N.139, T.140, N.199, L.203 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.138, A:N.139, A:T.140, A:T.140 EDO.3: 4 residues within 4Å: Chain A: S.329, Q.330, E.333, R.376 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.376 EDO.4: 5 residues within 4Å: Chain A: Q.317, S.318, P.319, L.320, V.511 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.320, A:E.452 Water bridges: A:Q.317, A:S.447 EDO.5: 5 residues within 4Å: Chain A: F.48, T.88, V.91, W.160, Q.271 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.88, A:Q.271 EDO.7: 5 residues within 4Å: Chain B: K.153, I.155, A.176, Q.177, E.196 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.177, B:Q.177, B:E.196, B:E.196

1 x WFS: (2R,3R,3aS,6S,6aR)-6-[(2-amino-3-bromoquinolin-7-yl)oxy]-2-(4-methyl-7H-pyrrolo[2,3-d]pyrimidin-7-yl)hexahydro-3aH-cyclopenta[b]furan-3,3a-diol(Non-covalent)

WFS.6: 23 residues within 4Å: Chain A: P.322, L.323, L.327, Y.332, F.335, K.341, G.373, G.375, E.400, K.401, N.402, S.426, D.427, M.428, R.429, E.443, L.444, L.445, G.446, E.452, C.457, S.586, W.587 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:P.322, A:L.327, A:Y.332, A:F.335, A:K.401, A:E.443 Hydrogen bonds: A:P.322, A:Y.332, A:G.375, A:E.400, A:K.401, A:N.402, A:M.428, A:E.452 Water bridges: A:K.401, A:L.445, A:S.447 pi-Stacking: A:F.335, A:F.335 pi-Cation interactions: A:K.401 Halogen bonds: A:S.586

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Quiroz, R.V. et al., The Discovery of Two Novel Classes of 5,5-Bicyclic Nucleoside-Derived PRMT5 Inhibitors for the Treatment of Cancer. J.Med.Chem. (2021)

Release Date

2021-04-21

Peptides

Protein arginine N-methyltransferase 5: A
Methylosome protein 50: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protein arginine N-methyltransferase 5

Methylosome protein 50

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