SMTL ID : 3fpd.1

G9a-like protein lysine methyltransferase inhibition by BIX-01294

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

2 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.1: 15 residues within 4Å: Chain A: M.131, G.132, W.133, S.167, Y.168, R.192, I.194, N.195, H.196, Y.237, F.241, F.249, C.251, R.252, C.253 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:W.133, A:W.133, A:S.167, A:S.167, A:Y.168, A:Y.168, A:H.196, A:H.196, A:H.196, A:R.252 Water bridges: A:R.192 SAH.7: 17 residues within 4Å: Chain B: M.131, G.132, W.133, S.167, Y.168, R.192, F.193, I.194, N.195, H.196, Y.237, F.241, W.242, F.249, C.251, R.252, C.253 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:Y.168 Hydrogen bonds: B:W.133, B:W.133, B:S.167, B:Y.168, B:Y.168, B:H.196, B:H.196, B:Y.237, B:R.252

2 x Q4A: N-(1-benzylpiperidin-4-yl)-6,7-dimethoxy-2-(4-methyl-1,4-diazepan-1-yl)quinazolin-4-amine(Non-covalent)

Q4A.2: 12 residues within 4Å: Chain A: D.157, A.160, D.161, R.163, D.166, L.169, D.171, C.181, R.240, F.241, I.244, K.245 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:D.166, A:L.169 Hydrogen bonds: A:D.166, A:D.166 Salt bridges: A:D.157, A:D.161, A:D.166, A:D.171 Q4A.8: 15 residues within 4Å: Chain B: D.157, A.160, D.161, V.162, R.163, E.164, D.166, L.169, D.171, C.181, Y.237, R.240, F.241, I.244, K.245 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:E.164, B:L.169, B:R.240 Hydrogen bonds: B:D.166, B:D.166 Salt bridges: B:D.157, B:D.166, B:D.171

8 x ZN: ZINC ION(Non-covalent)

ZN.3: 7 residues within 4Å: Chain A: C.57, C.70, C.100, C.104, C.106 Ligands: ZN.4, ZN.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.57, A:C.70, A:C.100, A:C.104 ZN.4: 6 residues within 4Å: Chain A: C.63, C.100, C.106, C.110 Ligands: ZN.3, ZN.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.63, A:C.100, A:C.106, A:C.110 ZN.5: 7 residues within 4Å: Chain A: C.57, C.59, C.63, C.68, C.100 Ligands: ZN.3, ZN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.57, A:C.59, A:C.63, A:C.68 ZN.6: 4 residues within 4Å: Chain A: C.198, C.251, C.253, C.258 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.198, A:C.251, A:C.253, A:C.258 ZN.9: 7 residues within 4Å: Chain B: C.57, C.70, C.100, C.104, C.106 Ligands: ZN.10, ZN.11 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.57, B:C.70, B:C.100, B:C.104 ZN.10: 7 residues within 4Å: Chain B: C.57, C.63, C.100, C.106, C.110 Ligands: ZN.9, ZN.11 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.63, B:C.100, B:C.106, B:C.110 ZN.11: 7 residues within 4Å: Chain B: C.57, C.59, C.63, C.68, C.100 Ligands: ZN.9, ZN.10 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.57, B:C.59, B:C.63, B:C.68 ZN.12: 4 residues within 4Å: Chain B: C.198, C.251, C.253, C.258 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.198, B:C.251, B:C.253, B:C.258

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chang, Y. et al., Structural basis for G9a-like protein lysine methyltransferase inhibition by BIX-01294. Nat.Struct.Mol.Biol. (2009)

Release Date

2009-02-17

Peptides

Histone-lysine N-methyltransferase, H3 lysine-9 specific 5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Histone-lysine N-methyltransferase, H3 lysine-9 specific 5

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