SMTL ID : 8box.1

LSD1-CoREST in complex with AW4 and SNAG peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.82 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: 8 residues within 4Å: Chain A: Q.377, N.554, L.555, A.558, N.559, W.571, D.574 Ligands: SV9.2 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.555 Hydrogen bonds: A:N.554, A:N.559

1 x SV9: [[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{S},4~{S})-5-[7,8-dimethyl-2,4-bis(oxidanylidene)-5-[3-[4-(3-phenylphenyl)phenyl]propanoyl]-1~{H}-benzo[g]pteridin-10-yl]-2,3,4-tris(oxidanyl)pentyl] hydrogen phosphate(Non-covalent)

SV9.2: 42 residues within 4Å: Chain A: I.303, 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, L.678, 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, PRO-ARG-SER-PHE.1 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:R.335, A:T.354, A:L.678, A:Y.780, A:T.829 Hydrogen bonds: A:S.305, A:S.308, A:S.308, A:A.328, A:R.335, A:V.336, A:A.350, A:M.351, A:V.352, A:V.352, A:V.609, A:V.609, A:K.680, A:W.775, A:E.820, A:A.828, A:V.830 Salt bridges: A:R.335, A:R.335 pi-Stacking: A:Y.780

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

2024-06-05

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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