SMTL ID : 2z3y.1

Crystal structure of Lysine-specific demethylase1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

monomer

Ligands

1 x F2N: [(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL (2R,3S,4S)-5-[7,8-DIMETHYL-2,4-DIOXO-5-(3-PHENYLPROPANOYL)-1,3,4,5-TETRAHYDROBENZO[G]PTERIDIN-10(2H)-YL]-2,3,4-TRIHYDROXYPENTYL DIHYDROGEN DIPHOSPHATE(Non-covalent)

F2N.1: 38 residues within 4Å: Chain A: I.113, G.114, S.115, G.116, V.117, S.118, L.136, E.137, A.138, R.139, G.143, G.144, R.145, L.158, G.159, A.160, M.161, V.162, T.164, F.367, T.417, A.418, V.419, T.453, L.454, P.455, V.466, L.488, W.580, W.585, S.589, Y.590, G.629, E.630, A.638, T.639, V.640, A.643 33 PLIP interactions: 33 interactions with chain A Hydrophobic interactions: A:T.164, A:W.580, A:Y.590, A:Y.590, A:T.639 Hydrogen bonds: A:S.115, A:G.116, A:S.118, A:S.118, A:A.138, A:R.139, A:R.139, A:R.145, A:A.160, A:M.161, A:V.162, A:V.162, A:V.419, A:V.419, A:Y.590, A:E.630, A:A.638, A:A.638, A:V.640 Water bridges: A:V.117, A:G.119, A:G.144, A:R.145, A:R.145, A:V.146, A:T.453 Salt bridges: A:R.145, A:R.145

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mimasu, S. et al., Crystal structure of histone demethylase LSD1 and tranylcypromine at 2.25A. Biochem.Biophys.Res.Commun. (2008)

Release Date

2008-01-01

Peptides

Lysine-specific histone demethylase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lysine-specific histone demethylase 1

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