Het-PDB Navi2 (PDB: 2UXN)

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Ligands
Code	Name	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
Code	Name	Emphasize

Modification
Code	Name	Show

Download interaction data: 2UXN

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

Chain :

UniProt :

O60341 (KDM1A_HUMAN)

Reaction:	EC:	Evidence:
Reaction:	Physiological Direction:	Evidence:
N(6),N(6)-dimethyl-L-lysyl(4)-[histone H3] + 2 A + 2 H2O = L- lysyl(4)-[histone H3] + 2 formaldehyde + 2 AH2	1.14.99.66	PubMed:15620353, PubMed:15811342, PubMed:27292636
	-	PubMed:15620353, PubMed:15811342, PubMed:27292636
Cofactor:	Evidence:	Note:
FAD	ECO:0000269 \| PubMed:15620353 ECO:0000269 \| PubMed:15811342 ECO:0000269 \| PubMed:16956976 ECO:0000269 \| PubMed:21300290 ECO:0000269 \| PubMed:23721412	-

Chain :	B
UniProt :	Q9UKL0 (RCOR1_HUMAN)
Reaction :	-

Chain :	E
UniProt :	P68431 (H31_HUMAN)
Reaction :	-

PDB ID: 2UXN

Hetero Atom Contents

Structure summary

Reaction