SMTL ID : 8ym7.1

Crystal structure of Lysine Specific Demethylase 1 (LSD1) with JH-45

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.83 Å

Oligo State

hetero-1-1-mer

Ligands

1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 36 residues within 4Å: Chain A: G.113, G.115, V.116, S.117, L.135, E.136, A.137, R.138, G.142, G.143, R.144, V.145, L.157, G.158, A.159, M.160, V.161, T.416, A.417, V.418, T.452, L.453, P.454, V.465, L.487, W.579, W.584, S.588, Y.589, G.628, E.629, A.637, T.638, V.639, A.642 Ligands: 01.2 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:S.114, A:G.115, A:V.116, A:S.117, A:S.117, A:A.137, A:R.138, A:G.142, A:R.144, A:A.159, A:M.160, A:V.161, A:V.161, A:V.418, A:V.418, A:E.629, A:V.639 Salt bridges: A:R.144, A:R.144 pi-Stacking: A:W.584, A:Y.589

1 x 01: 4-[5-(4-azanylpiperidin-1-yl)-8-(4-methylphenyl)pyrido[3,4-b]pyrazin-7-yl]-2-fluoranyl-benzenecarbonitrile

01.2: 20 residues within 4Å: Chain A: G.158, M.160, V.161, I.184, Q.186, F.366, A.367, N.368, D.383, E.387, H.392, L.487, K.489, L.505, W.523, Y.589, P.636, A.637, T.638 Ligands: FAD.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.161, A:V.161, A:F.366, A:F.366, A:W.523 Hydrogen bonds: A:K.489

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, H. et al., Discovery of Novel LSD1 Inhibitors for the Treatment of Autosomal Dominant Polycystic Kidney Disease. To Be Published

Release Date

2024-05-22

Peptides

Lysine-specific histone demethylase 1A: A
REST corepressor 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Lysine-specific histone demethylase 1A

REST corepressor 1