SMTL ID : 2uxn.1

STRUCTURAL BASIS OF HISTONE DEMETHYLATION BY LSD1 REVEALED BY SUICIDE INACTIVATION

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.72 Å

Oligo State

hetero-oligomer

Ligands

1 x FDA: DIHYDROFLAVINE-ADENINE DINUCLEOTIDE(Non-covalent)

FDA.1: 36 residues within 4Å: Chain A: G.115, G.117, V.118, S.119, L.137, E.138, A.139, R.140, G.144, G.145, R.146, V.147, L.159, G.160, A.161, M.162, V.163, T.418, A.419, V.420, T.454, L.455, P.456, L.489, K.491, W.581, W.586, S.590, Y.591, G.630, E.631, A.639, T.640, V.641, A.644 Chain C: X.4 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:R.146, A:L.489, A:W.581, A:Y.591 Hydrogen bonds: A:S.116, A:G.117, A:S.119, A:S.119, A:A.139, A:R.140, A:G.144, A:R.146, A:A.161, A:M.162, A:V.163, A:V.163, A:V.420, A:V.420, A:E.631, A:V.641 Water bridges: A:V.118, A:V.118, A:H.632 Salt bridges: A:R.146, A:R.146

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: G.239, E.243, R.356, L.374, R.518 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.356, A:R.356, A:R.518, A:R.518

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.4: 1 residues within 4Å: Chain A: D.584 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, M. et al., Structural Basis of Histone Demethylation by Lsd1 Revealed by Suicide Inactivation. Nat.Struct.Mol.Biol. (2007)

Release Date

2007-05-29

Peptides

LYSINE-SPECIFIC HISTONE DEMETHYLASE 1: A
REST COREPRESSOR 1: B
HISTONE H3.1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
E

LYSINE-SPECIFIC HISTONE DEMETHYLASE 1

REST COREPRESSOR 1

HISTONE H3.1

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