E3Docker 2.0

Amiodarone

E3L000430

Internal ID: BDB000430

Activity data available Local docking-ready structure

Structure

/e3_file/ligand_db/generated/BDB000430/BDB000430.sdf

Basic Properties

Compound ID

E3L000430

Internal ID

BDB000430

Molecular formula

C25H29I2NO3

Molecular weight

645.319000

Exact mass

645.023690

XLogP

6.9362

TPSA

42.6800

HBA / HBD

4 / 0

Rotatable bonds

Heavy atoms / rings

31 / 3

Activity summary

IC50 unknown 84000.00000000 nM
6 activity record(s) imported

InChIKey

IYIKLHRQXLHMJQ-UHFFFAOYSA-N

SMILES

CCCCc1oc2ccccc2c1C(=O)c1cc(I)c(OCCN(CC)CC)c(I)c1

Aliases

BDBM18957 (preferred) Amiodarone (source_name) BDBM18957 (source_id)

E3 Relation

E3 UniProt	Gene / protein	Relation type	Ligand role	Direct	Functional	Docking	Source	Evidence
O75151	PHF2;CENP-35;KIAA0662 Lysine-specific demethylase PHF2	reported_binder	bindingdb_reported	Yes	No	low	BindingDB:BDBM18957	medium ; target=Lysine-specific demethylase PHF2
P29375	KDM5A;JARID1A;RBBP2;RBP2 Lysine-specific demethylase 5A	reported_binder	bindingdb_reported	Yes	No	low	BindingDB:BDBM18957	medium ; target=Lysine-specific demethylase 5A
Q6ZMT4	KDM7A;JHDM1D;KDM7;KIAA1718 Lysine-specific demethylase 7A	reported_binder	bindingdb_reported	Yes	No	low	BindingDB:BDBM18957	medium ; target=Lysine-specific demethylase 7A

Sources and Literature

Source	Source ID	Source URL	Download URL	DOI / PMID
BindingDB	BDBM18957	Open	-	10.1016/j.bmc.2018.03.030 PMID: 29764755
PubChem	CID2157	Open	-

Structure Files

Kind	Format	Status	Docking use	File / link	Preparation note
canonical_2d	SMILES	raw	Docking-ready	CCCCc1oc2ccccc2c1C(=O)c1cc(I)c(OCCN(CC)CC)c(I)c1	keep_bindingdb_unique
generated_3d	SDF	prepared	Docking-ready	public/e3_file/ligand_db/generated/BDB000430/BDB000430.sdf	Generated from canonical SMILES
generated_3d	MOL2	prepared	Docking-ready	public/e3_file/ligand_db/generated/BDB000430/BDB000430.mol2	Generated from canonical SMILES
docking_ready	PDBQT	prepared	Docking-ready	public/e3_file/ligand_db/generated/BDB000430/BDB000430.pdbqt	Generated from canonical SMILES
image	PNG	prepared	Reference	public/e3_file/ligand_db/generated/BDB000430/BDB000430.png	Generated from canonical SMILES
image	SVG	prepared	Reference	public/e3_file/ligand_db/generated/BDB000430/BDB000430.svg	Generated from canonical SMILES

Activity

Target	Source	Assay	Result	Potency	Literature	Records
Lysine-specific demethylase 5A P29375 E3 ligase component	BindingDB:BDBM18957	IC50	99000 nM	Low	DOI: 10.1016/j.bmc.2018.03.030 PMID: 29764755	1
Lysine-specific demethylase 5A P29375 E3 ligase component	BindingDB:BDBM18957	IC50	>1000000 nM	Low	DOI: 10.1016/j.bmc.2018.03.030 PMID: 29764755	2 source records
Lysine-specific demethylase 7A Q6ZMT4 E3 ligase component	BindingDB:BDBM18957	IC50	156000 nM	Low	DOI: 10.1016/j.bmc.2018.03.030 PMID: 29764755	2 source records
Lysine-specific demethylase PHF2 O75151 E3 ligase component	BindingDB:BDBM18957	IC50	84000 nM	Low	DOI: 10.1016/j.bmc.2018.03.030 PMID: 29764755	1