SMTL ID : 3u78.1

E67-2 selectively inhibits KIAA1718, a human histone H3 lysine 9 Jumonji demethylase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.69 Å

Oligo State

monomer

Ligands

1 x AKG: 2-OXOGLUTARIC ACID(Non-covalent)

AKG.1: 12 residues within 4Å: Chain A: N.133, I.135, L.180, T.188, H.191, D.193, Y.201, K.208, H.263, V.265 Ligands: NI.2, E67.7 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.265 Hydrogen bonds: A:N.133, A:T.188, A:T.188, A:Y.201 Water bridges: A:T.188, A:T.188 Salt bridges: A:H.191, A:K.208

1 x NI: NICKEL (II) ION(Non-covalent)

NI.2: 4 residues within 4Å: Chain A: H.191, D.193, H.263 Ligands: AKG.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.191, A:D.193, A:H.263, H2O.1

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

CL.3: 5 residues within 4Å: Chain A: S.158, W.159, V.160, F.278, L.279 Ligand excluded by PLIP

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 3 residues within 4Å: Chain A: E.218, R.222, D.242 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.218, A:R.222

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

EDO.5: 2 residues within 4Å: Chain A: K.62, G.64 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.63 EDO.6: 3 residues within 4Å: Chain A: D.75, D.76, G.78 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.76, A:D.76, A:D.76, A:G.78

1 x E67: 7-[(5-aminopentyl)oxy]-N~4~-(1-benzylpiperidin-4-yl)-N~2~-[3-(dimethylamino)propyl]-6-methoxyquinazoline-2,4-diamine(Non-covalent)

E67.7: 10 residues within 4Å: Chain A: Q.109, D.111, T.188, D.189, H.191, D.193, F.194, P.300, D.301 Ligands: AKG.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.109, A:F.194 Salt bridges: A:D.111

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Upadhyay, A.K. et al., An Analog of BIX-01294 Selectively Inhibits a Family of Histone H3 Lysine 9 Jumonji Demethylases. J.Mol.Biol. (2012)

Release Date

2012-01-25

Peptides

Lysine-specific demethylase 7: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lysine-specific demethylase 7

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