SMTL ID : 8f59.1

LSD1-CoREST in complex with AW2 and SNAG peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-1-1-mer

Ligands

1 x PRO- ARG- SER- PHE: Zinc finger protein SNAI1(Non-covalent)

PRO-ARG-SER-PHE.1: 12 residues within 4Å: Chain A: Q.377, L.405, N.554, L.555, A.558, N.559, W.571, D.574, D.575, H.583, L.696 Ligands: XB6.2 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.555, A:L.696 Hydrogen bonds: A:N.554, A:D.575

1 x XB6: [(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl (2R,3S,4S)-5-{5-[3-([1,1'-biphenyl]-4-yl)propanoyl]-7,8-dimethyl-2,4-dioxo-1,3,4,5-tetrahydrobenzo[g]pteridin-10(2H)-yl}-2,3,4-trihydroxypentyl dihydrogen diphosphate (non-preferred name)(Non-covalent)

XB6.2: 39 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, H.583, T.607, A.608, V.609, T.643, L.644, P.645, V.656, K.680, W.770, W.775, S.779, Y.780, G.819, E.820, A.828, T.829, V.830, A.833 Ligands: PRO-ARG-SER-PHE.1 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:R.335, A:T.354, A:Y.780 Hydrogen bonds: A:S.305, A:V.307, 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:K.680, A:E.820, A:A.828, A:V.830 Salt bridges: A:R.335, A:R.335 pi-Stacking: A:W.775

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

2024-06-12

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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