Brand  (β version)

PDB ID: 2UXN

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Ligands
Code Name Style Show Link
CL Chloride ion PoSSuM
FDA Dihydroflavine-adenine dinucleotide PoSSuM
GOL Glycerol PoSSuM
Non-standard Residues
Code Name Show
LYP N~6~-methyl-N~6~-propyl-L-lysine
Glycosylation
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Modification
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Structure summary

Code : 2UXN   PDBj   RCSB PDB   PDBe
Header : OXIDOREDUCTASE/TRANSCRIPTION REGULATOR
Title : Structural Basis of Histone Demethylation by LSD1 Revealed by Suicide Inactivation
Release Data : 2007-05-29
Compound :
mol_id molecule chains synonym
1 LYSINE-SPECIFIC HISTONE DEMETHYLASE 1 A FLAVIN-CONTAINING AMINE OXIDASE DOMAIN-CONTAINING PROTEIN 2, BRAF35-HDAC COMPLEX PROTEIN BHC110, LYSINE-SPECIFIC DEMETHYLASE 1
ec: 1.-.-.-
fragment: SWIRM DOMAIN, AMINE OXIDASE DOMAIN AND LINKER, RESIDUES 171-836
mol_id molecule chains synonym
2 REST COREPRESSOR 1 B PROTEIN COREST
fragment: FRAGMENT OF SANT1, LINKER REGION AND SANT2 DOMAIN, RESIDUES 286-482
mol_id molecule chains synonym
3 HISTONE H3.1 E H3/A, H3/B, H3/C, H3/D, H3/F, H3/H, H3/I, H3/J, H3/K, H3/L
fragment: HISTONE H3-DERIVED SUICIDE INHIBITOR, RESIDUES 2-22
other_details: HISTONE H3 N-TERMINAL PEPTIDE (RESIDUES 1-21 ) WITH A PROPARGYL MOIETY AT LYSINE 4 COVALENTLY ATTACHED TO FAD AND SUBSEQUENTLY REDUCED USING SODIUM BOROHYDRIDE
Source :
mol_id organism_scientific organism_common expression_system
1 HOMO SAPIENS  (taxid:9606) HUMAN ESCHERICHIA COLI  (taxid:511693)
expression_system_strain: BL21
expression_system_vector: PGEX-6P1
expression_system_plasmid: MJ23
mol_id organism_scientific organism_common expression_system
2 HOMO SAPIENS  (taxid:9606) HUMAN ESCHERICHIA COLI  (taxid:511693)
expression_system_strain: BL21
expression_system_vector: PET-28
expression_system_plasmid: MJ65
mol_id organism_scientific organism_common
3 HOMO SAPIENS  (taxid:9606) HUMAN
synthetic: yes
Authors : Yang, M., Culhane, J.C., Szewczuk, L.M., Gocke, C.B., Brautigam, C.A., Tomchick, D.R., Machius, M., Cole, P.A., Yu, H.
Keywords : OXIDOREDUCTASE-TRANSCRIPTION REGULATOR COMPLEX, OXIDOREDUCTASE-REPRESSOR COMPLEX, HISTONE DEMETHYLASE, FAD, LSD1, COREST, REPRESSOR, TRANSCRIPTION REGULATION, HOST-VIRUS INTERACTION, CHROMATIN DEMETHYLATION, NUCLEAR PROTEIN, PHOSPHORYLATION, CHROMATIN REGULATOR, NUCLEOSOMES, TRANSCRIPTION, OXIDOREDUCTASE
Exp. method : X-RAY DIFFRACTION ( 2.72 Å )
Citation :

Structural Basis of Histone Demethylation by Lsd1 Revealed by Suicide Inactivation.

Yang, M.,Culhane, J.C.,Szewczuk, L.M.  et al.
(2007)  Nat.Struct.Mol.Biol.  14 : 535

PubMed: 17529991
DOI: 10.1038/NSMB1255

Structural Basis for Corest-Dependent Demethylation of Nucleosomes by the Human Lsd1 Histone Demethylase

Yang, M.,Gocke, C.B.,Luo, X.  et al.
(2006)  Mol.Cell  23 : 377

PubMed: 16885027
DOI: 10.1016/J.MOLCEL.2006.07.012

Reaction

Chain : A
UniProt : O60341 (KDM1A_HUMAN)
Reaction: EC: Evidence:
Physiological Direction:
2 A + 2 H2O + N(6),N(6)-dimethyl-L-lysyl(4)-[histone H3] = 2 AH2 + 2 formaldehyde + L-lysyl(4)-[histone H3] 1.14.99.66 PubMed:15620353, PubMed:15811342
-
Chain : B
UniProt : Q9UKL0 (RCOR1_HUMAN)
Reaction : -
Chain : E
UniProt : P68431 (H31_HUMAN)
Reaction : -