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BDBM755919

E3L039400
Internal ID: BDB039400
Activity data available Local docking-ready structure
Dock with Q16531 Dock with Q96SW2
Structure
/e3_file/ligand_db/generated/BDB039400/BDB039400.sdf
Basic Properties
Compound ID
E3L039400
Internal ID
BDB039400
Molecular formula
C30H34N6O4
Molecular weight
542.640000
Exact mass
542.264154
XLogP
2.3015
TPSA
107.8500
HBA / HBD
6 / 1
Rotatable bonds
5
Heavy atoms / rings
40 / 6
Activity summary
IC50 < 10.00000000 nM
2 activity record(s) imported
InChIKey
DATZQBCJKWUZBI-UHFFFAOYSA-N
SMILES
CN(C)C(=O)C1CCN(Cc2cc(-c3ccc4c(c3)CN(C3CCC(=O)NC3=O)C4=O)nc3c2ccn3C)CC1
Aliases
BDBM755919 (preferred) 1-((6-(2-(2,6-dioxopiperidin-3-yl)-1-oxoisoindolin-5-yl)-1-methyl-1H-pyrrolo[2,3-b]pyridin-4-yl)methyl)-N,N-dimethylpiperidine-4-carboxamide (source_name) BDBM755919 (source_id)
E3 Relation
E3 UniProt Gene / protein Relation type Ligand role Direct Functional Docking Source Evidence
Q16531 DDB1;XAP1
DNA damage-binding protein 1		 reported_binder bindingdb_reported Yes No low BindingDB:BDBM755919 medium
; target=DNA damage-binding protein 1
Q96SW2 CRBN;AD-006
Protein cereblon		 reported_binder bindingdb_reported Yes No low BindingDB:BDBM755919 medium
; target=DNA damage-binding protein 1
Sources and Literature
Source Source ID Source URL Download URL DOI / PMID
BindingDB BDBM755919 Open - 10.7270/Q2WM1K1R
PubChem CID169206640 Open -
Structure Files
Kind Format Status Docking use File / link Preparation note
canonical_2d SMILES raw Docking-ready CN(C)C(=O)C1CCN(Cc2cc(-c3ccc4c(c3)CN(C3CCC(=O)NC3=O)C4=O)nc3c2ccn3C)CC1 keep_bindingdb_unique
generated_3d SDF prepared Docking-ready public/e3_file/ligand_db/generated/BDB039400/BDB039400.sdf Generated from canonical SMILES
generated_3d MOL2 prepared Docking-ready public/e3_file/ligand_db/generated/BDB039400/BDB039400.mol2 Generated from canonical SMILES
docking_ready PDBQT prepared Docking-ready public/e3_file/ligand_db/generated/BDB039400/BDB039400.pdbqt Generated from canonical SMILES
image PNG prepared Reference public/e3_file/ligand_db/generated/BDB039400/BDB039400.png Generated from canonical SMILES
image SVG prepared Reference public/e3_file/ligand_db/generated/BDB039400/BDB039400.svg Generated from canonical SMILES
Activity
Target Source Assay Result Potency Literature Records
DNA damage-binding protein 1
Q16531
E3 ligase component 		BindingDB:BDBM755919 IC50 <10 nM Very high DOI: 10.7270/Q2WM1K1R 2 source records