SMTL ID : 4qqn.1

Protein arginine methyltransferase 3 in complex with compound MTV044246

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.08 Å

Oligo State

homo-dimer

Ligands

2 x 3BQ: 1-{2-[1-(aminomethyl)cyclohexyl]ethyl}-3-isoquinolin-6-ylurea(Non-covalent)

3BQ.1: 13 residues within 4Å: Chain A: V.179, D.181, K.184, H.185, R.188, V.212, E.214, L.216, T.258, A.259, L.295 Chain B: G.37, E.40 10 PLIP interactions: 9 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:K.184, A:K.184, A:L.216, A:L.295, B:E.40 Hydrogen bonds: A:R.188, A:E.214, A:E.214, A:T.258 Water bridges: A:E.214 3BQ.16: 13 residues within 4Å: Chain A: G.37, E.40 Chain B: V.179, D.181, K.184, H.185, R.188, V.212, E.214, L.216, T.258, A.259, L.295 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:K.184, B:K.184, B:L.216, B:L.295, A:E.40 Hydrogen bonds: B:R.188, B:E.214, B:E.214

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: Y.57, P.60, K.84, A.85 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.57 GOL.17: 4 residues within 4Å: Chain B: Y.57, P.60, K.84, A.85 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.57

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 3 residues within 4Å: Chain A: P.225, Y.263, Q.283 Ligand excluded by PLIP CL.18: 3 residues within 4Å: Chain B: P.225, Y.263, Q.283 Ligand excluded by PLIP

24 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.4: 2 residues within 4Å: Chain A: D.94, Q.95 Ligand excluded by PLIP UNX.5: 1 residues within 4Å: Chain A: E.269 Ligand excluded by PLIP UNX.6: 2 residues within 4Å: Chain A: D.194, Y.196 Ligand excluded by PLIP UNX.7: 2 residues within 4Å: Chain A: Y.196 Chain B: R.53 Ligand excluded by PLIP UNX.8: 2 residues within 4Å: Chain A: P.60, H.61 Ligand excluded by PLIP UNX.9: 2 residues within 4Å: Chain A: M.42, M.140 Ligand excluded by PLIP UNX.10: 2 residues within 4Å: Chain A: T.236, D.240 Ligand excluded by PLIP UNX.11: 2 residues within 4Å: Chain A: F.278, S.279 Ligand excluded by PLIP UNX.12: 3 residues within 4Å: Chain A: D.181, V.182, N.183 Ligand excluded by PLIP UNX.13: 3 residues within 4Å: Chain A: K.131, A.162, K.163 Ligand excluded by PLIP UNX.14: 4 residues within 4Å: Chain A: K.298, F.300, N.331, S.333 Ligand excluded by PLIP UNX.15: 1 residues within 4Å: Chain A: D.133 Ligand excluded by PLIP UNX.19: 2 residues within 4Å: Chain B: D.94, Q.95 Ligand excluded by PLIP UNX.20: 1 residues within 4Å: Chain B: E.269 Ligand excluded by PLIP UNX.21: 2 residues within 4Å: Chain B: D.194, Y.196 Ligand excluded by PLIP UNX.22: 2 residues within 4Å: Chain A: R.53 Chain B: Y.196 Ligand excluded by PLIP UNX.23: 2 residues within 4Å: Chain B: P.60, H.61 Ligand excluded by PLIP UNX.24: 2 residues within 4Å: Chain B: M.42, M.140 Ligand excluded by PLIP UNX.25: 2 residues within 4Å: Chain B: T.236, D.240 Ligand excluded by PLIP UNX.26: 2 residues within 4Å: Chain B: F.278, S.279 Ligand excluded by PLIP UNX.27: 3 residues within 4Å: Chain B: D.181, V.182, N.183 Ligand excluded by PLIP UNX.28: 3 residues within 4Å: Chain B: K.131, A.162, K.163 Ligand excluded by PLIP UNX.29: 4 residues within 4Å: Chain B: K.298, F.300, N.331, S.333 Ligand excluded by PLIP UNX.30: 1 residues within 4Å: Chain B: D.133 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kaniskan, H.U. et al., Discovery of Potent and Selective Allosteric Inhibitors of Protein Arginine Methyltransferase 3 (PRMT3). J. Med. Chem. (2018)

Release Date

2014-09-17

Peptides

PRMT3 protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

PRMT3 protein

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