SMTL ID : 4hsg.1

Crystal structure of human PRMT3 in complex with an allosteric inhibitor (PRMT3- KTD)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x KTD: 1-(1,2,3-benzothiadiazol-6-yl)-3-(2-oxo-2-phenylethyl)urea(Non-covalent)

KTD.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: 8 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:K.184, A:K.184, A:L.216, A:L.295, B:E.40, B:E.40 Hydrogen bonds: A:R.188, A:E.214, A:E.214, A:T.258 KTD.19: 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 9 PLIP interactions: 7 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:K.184, B:K.184, B:L.216, B:L.295, A:E.40, A:E.40 Hydrogen bonds: B:R.188, B:E.214, B:E.214

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

UNX.2: 3 residues within 4Å: Chain A: E.97, Y.100, K.119 Ligand excluded by PLIP UNX.3: 2 residues within 4Å: Chain A: V.125, H.126 Ligand excluded by PLIP UNX.4: 1 residues within 4Å: Chain A: E.269 Ligand excluded by PLIP UNX.5: 3 residues within 4Å: Chain A: Y.196, G.197 Chain B: R.53 Ligand excluded by PLIP UNX.6: 2 residues within 4Å: Chain A: D.217, K.219 Ligand excluded by PLIP UNX.7: 3 residues within 4Å: Chain A: E.138, W.139, M.140 Ligand excluded by PLIP UNX.8: 3 residues within 4Å: Chain A: K.184, L.216, D.217 Ligand excluded by PLIP UNX.9: 3 residues within 4Å: Chain A: S.180, S.255, M.256 Ligand excluded by PLIP UNX.10: 2 residues within 4Å: Chain A: K.229, H.230 Ligand excluded by PLIP UNX.11: 2 residues within 4Å: Chain A: F.300, S.301 Ligand excluded by PLIP UNX.12: 2 residues within 4Å: Chain A: C.202, K.205 Ligand excluded by PLIP UNX.13: 3 residues within 4Å: Chain A: P.282, Q.283, S.284 Ligand excluded by PLIP UNX.14: 4 residues within 4Å: Chain A: T.173, G.227, I.228, K.229 Ligand excluded by PLIP UNX.15: 4 residues within 4Å: Chain A: Y.267, R.275, V.276, V.277 Ligand excluded by PLIP UNX.16: 4 residues within 4Å: Chain A: H.185, A.186, I.189, A.190 Ligand excluded by PLIP UNX.17: 2 residues within 4Å: Chain A: V.215, K.290 Ligand excluded by PLIP UNX.18: 2 residues within 4Å: Chain A: K.184, D.187 Ligand excluded by PLIP UNX.20: 3 residues within 4Å: Chain B: E.97, Y.100, K.119 Ligand excluded by PLIP UNX.21: 2 residues within 4Å: Chain B: V.125, H.126 Ligand excluded by PLIP UNX.22: 1 residues within 4Å: Chain B: E.269 Ligand excluded by PLIP UNX.23: 3 residues within 4Å: Chain A: R.53 Chain B: Y.196, G.197 Ligand excluded by PLIP UNX.24: 2 residues within 4Å: Chain B: D.217, K.219 Ligand excluded by PLIP UNX.25: 3 residues within 4Å: Chain B: E.138, W.139, M.140 Ligand excluded by PLIP UNX.26: 3 residues within 4Å: Chain B: K.184, L.216, D.217 Ligand excluded by PLIP UNX.27: 3 residues within 4Å: Chain B: S.180, S.255, M.256 Ligand excluded by PLIP UNX.28: 2 residues within 4Å: Chain B: K.229, H.230 Ligand excluded by PLIP UNX.29: 2 residues within 4Å: Chain B: F.300, S.301 Ligand excluded by PLIP UNX.30: 2 residues within 4Å: Chain B: C.202, K.205 Ligand excluded by PLIP UNX.31: 3 residues within 4Å: Chain B: P.282, Q.283, S.284 Ligand excluded by PLIP UNX.32: 4 residues within 4Å: Chain B: T.173, G.227, I.228, K.229 Ligand excluded by PLIP UNX.33: 4 residues within 4Å: Chain B: Y.267, R.275, V.276, V.277 Ligand excluded by PLIP UNX.34: 4 residues within 4Å: Chain B: H.185, A.186, I.189, A.190 Ligand excluded by PLIP UNX.35: 2 residues within 4Å: Chain B: V.215, K.290 Ligand excluded by PLIP UNX.36: 2 residues within 4Å: Chain B: K.184, D.187 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, F. et al., Exploiting an allosteric binding site of PRMT3 yields potent and selective inhibitors. J. Med. Chem. (2013)

Release Date

2012-12-05

Peptides

PRMT3 protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

PRMT3 protein

Related Entries With Identical Sequence