SMTL ID : 8frq.1

LSD1-CoREST in complex with T14, long soaking

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.89 Å

Oligo State

hetero-1-1-mer

Ligands

1 x XF6: [(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl (2R,3S,4S)-5-[(4aS)-7,8-dimethyl-5-(3-{4-[(5-methyl-1,3,4-thiadiazol-2-yl)carbamoyl]phenyl}propanoyl)-2,4-dioxo-3,4,4a,5-tetrahydrobenzo[g]pteridin-10(2H)-yl]-2,3,4-trihydroxypentyl dihydrogen diphosphate (non-preferred name)(Non-covalent)

XF6.1: 41 residues within 4Å: Chain A: G.304, 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, D.574, E.578, 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, P.827, A.828, T.829, V.830, A.833 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:T.354, A:E.578, A:L.678, A:W.770, A:Y.780, A:Y.780, A:T.829 Hydrogen bonds: A:S.305, A:G.306, A:V.307, A:S.308, A:S.308, A:S.308, A:G.309, A:A.328, A:R.329, 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:P.827, 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

2024-08-07

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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