SMTL ID : 5l3g.1

LSD1-CoREST1 in complex with polymyxin E (colistin)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

FAD.1: 39 residues within 4Å: Chain A: G.163, S.164, G.165, V.166, S.167, L.185, E.186, A.187, R.188, G.192, G.193, R.194, V.195, L.207, G.208, A.209, M.210, V.211, T.466, A.467, V.468, T.502, L.503, P.504, V.515, L.537, K.539, W.629, W.634, S.638, Y.639, G.678, E.679, A.687, T.688, V.689, A.692 Chain C: L.8 Ligands: NA.2 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:L.537, A:W.629, A:Y.639 Hydrogen bonds: A:V.166, A:S.167, A:S.167, A:A.187, A:R.188, A:R.188, A:G.192, A:R.194, A:M.210, A:V.211, A:V.211, A:V.468, A:V.468, A:E.679, A:V.689 Salt bridges: A:R.194, A:R.194 pi-Stacking: A:W.634

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 6 residues within 4Å: Chain A: G.163, G.165, S.167, G.168, T.502 Ligands: FAD.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.165, A:G.165, A:G.168 NA.3: 3 residues within 4Å: Chain A: E.291, R.404, R.566 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.404, A:R.566, A:R.566

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Speranzini, V. et al., Polymyxins and quinazolines are LSD1/KDM1A inhibitors with unusual structural features. Sci Adv (2016)

Release Date

2016-09-21

Peptides

Lysine-specific histone demethylase 1A: A
REST corepressor 1: B
polymyxin E: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Lysine-specific histone demethylase 1A

REST corepressor 1

polymyxin E

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