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BDBM755898

E3L039380
Internal ID: BDB039380
Activity data available Local docking-ready structure
Dock with Q16531 Dock with Q96SW2
Structure
/e3_file/ligand_db/generated/BDB039380/BDB039380.sdf
Basic Properties
Compound ID
E3L039380
Internal ID
BDB039380
Molecular formula
C26H28N4O3
Molecular weight
444.535000
Exact mass
444.216141
XLogP
2.5941
TPSA
82.6100
HBA / HBD
5 / 1
Rotatable bonds
4
Heavy atoms / rings
33 / 6
Activity summary
IC50 unknown 20.00000000 nM
2 activity record(s) imported
InChIKey
SCMAEFRSVXVMPT-UHFFFAOYSA-N
SMILES
O=C1CCC(N2Cc3cc(-c4cc(CN5CCCC5)c5c(n4)CCC5)ccc3C2=O)C(=O)N1
Aliases
BDBM755898 (preferred) 3-(1-oxo-5-(4-(pyrrolidin-1-ylmethyl)-6,7-dihydro-5H-cyclopenta[b]pyridin-2-yl)isoindolin-2-yl)piperidine-2,6-dione (source_name) BDBM755898 (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:BDBM755898 medium
; target=DNA damage-binding protein 1
Q96SW2 CRBN;AD-006
Protein cereblon		 reported_binder bindingdb_reported Yes No low BindingDB:BDBM755898 medium
; target=DNA damage-binding protein 1
Sources and Literature
Source Source ID Source URL Download URL DOI / PMID
BindingDB BDBM755898 Open - 10.7270/Q2WM1K1R
PubChem CID169206607 Open -
Structure Files
Kind Format Status Docking use File / link Preparation note
canonical_2d SMILES raw Docking-ready O=C1CCC(N2Cc3cc(-c4cc(CN5CCCC5)c5c(n4)CCC5)ccc3C2=O)C(=O)N1 keep_bindingdb_unique
generated_3d SDF prepared Docking-ready public/e3_file/ligand_db/generated/BDB039380/BDB039380.sdf Generated from canonical SMILES
generated_3d MOL2 prepared Docking-ready public/e3_file/ligand_db/generated/BDB039380/BDB039380.mol2 Generated from canonical SMILES
docking_ready PDBQT prepared Docking-ready public/e3_file/ligand_db/generated/BDB039380/BDB039380.pdbqt Generated from canonical SMILES
image PNG prepared Reference public/e3_file/ligand_db/generated/BDB039380/BDB039380.png Generated from canonical SMILES
image SVG prepared Reference public/e3_file/ligand_db/generated/BDB039380/BDB039380.svg Generated from canonical SMILES
Activity
Target Source Assay Result Potency Literature Records
DNA damage-binding protein 1
Q16531
E3 ligase component 		BindingDB:BDBM755898 IC50 20 nM High DOI: 10.7270/Q2WM1K1R 2 source records