SMTL ID : 8frv.1

LSD1-CoREST in complex with T17, short soaking

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.72 Å

Oligo State

hetero-1-1-mer

Ligands

1 x YAF: [(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl (2R,3S,4S)-5-[(1R,3S,3aS,13R)-3-[3-(dimethylcarbamoyl)phenyl]-1-hydroxy-10,11-dimethyl-4,6-dioxo-2,3,5,6-tetrahydro-1H-benzo[g]pyrrolo[2,1-e]pteridin-8(4H)-yl]-2,3,4-trihydroxypentyl dihydrogen diphosphate (non-preferred name)(Covalent)

YAF.1: 40 residues within 4Å: Chain A: G.304, S.305, G.306, V.307, S.308, L.326, E.327, A.328, R.329, G.333, G.334, R.335, V.336, L.348, G.349, A.350, M.351, V.352, T.354, A.558, N.559, T.607, A.608, V.609, T.643, L.644, P.645, V.656, L.678, W.770, W.775, S.779, Y.780, G.819, E.820, P.827, A.828, T.829, V.830, A.833 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:R.335, A:T.354, A:Y.780, A:Y.780 Hydrogen bonds: A:S.305, A:G.306, A:S.308, A:S.308, A:A.328, A:R.335, A:A.350, A:M.351, A:V.352, A:V.352, A:V.609, A:V.609, A:E.820, A:V.830 Salt bridges: A:R.335, A:R.335

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Caroli, J. et al., Distal drug resistance mutations promote covalent inhibitor-adduct Grob fragmentation in LSD1. To be published

Release Date

2024-08-07

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

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