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BDBM755840

E3L039323
Internal ID: BDB039323
Activity data available Local docking-ready structure
Dock with Q16531 Dock with Q96SW2
Structure
/e3_file/ligand_db/generated/BDB039323/BDB039323.sdf
Basic Properties
Compound ID
E3L039323
Internal ID
BDB039323
Molecular formula
C30H28ClN5O3
Molecular weight
542.039000
Exact mass
541.188067
XLogP
3.9870
TPSA
96.3300
HBA / HBD
5 / 2
Rotatable bonds
7
Heavy atoms / rings
39 / 6
Activity summary
IC50 unknown 20.00000000 nM
2 activity record(s) imported
InChIKey
HZTGZHRBDWGKKB-UHFFFAOYSA-N
SMILES
Cn1cnc2c(-c3ccc4c(c3)CN(C3CCC(=O)NC3=O)C4=O)cc(CNCCc3ccccc3Cl)cc21
Aliases
BDBM755840 (preferred) 3-(5-(6-(((2-chlorophenethyl)amino)methyl)-1-methyl-1H-benzo[d]imidazol-4-yl)-1-oxoisoindolin-2-yl)piperidine-2,6-dione (source_name) BDBM755840 (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:BDBM755840 medium
; target=DNA damage-binding protein 1
Q96SW2 CRBN;AD-006
Protein cereblon		 reported_binder bindingdb_reported Yes No low BindingDB:BDBM755840 medium
; target=DNA damage-binding protein 1
Sources and Literature
Source Source ID Source URL Download URL DOI / PMID
BindingDB BDBM755840 Open - 10.7270/Q2WM1K1R
PubChem CID169206664 Open -
Structure Files
Kind Format Status Docking use File / link Preparation note
canonical_2d SMILES raw Docking-ready Cn1cnc2c(-c3ccc4c(c3)CN(C3CCC(=O)NC3=O)C4=O)cc(CNCCc3ccccc3Cl)cc21 keep_bindingdb_unique
generated_3d SDF prepared Docking-ready public/e3_file/ligand_db/generated/BDB039323/BDB039323.sdf Generated from canonical SMILES
generated_3d MOL2 prepared Docking-ready public/e3_file/ligand_db/generated/BDB039323/BDB039323.mol2 Generated from canonical SMILES
docking_ready PDBQT prepared Docking-ready public/e3_file/ligand_db/generated/BDB039323/BDB039323.pdbqt Generated from canonical SMILES
image PNG prepared Reference public/e3_file/ligand_db/generated/BDB039323/BDB039323.png Generated from canonical SMILES
image SVG prepared Reference public/e3_file/ligand_db/generated/BDB039323/BDB039323.svg Generated from canonical SMILES
Activity
Target Source Assay Result Potency Literature Records
DNA damage-binding protein 1
Q16531
E3 ligase component 		BindingDB:BDBM755840 IC50 20 nM High DOI: 10.7270/Q2WM1K1R 2 source records