PDB Entry (5f5c) Download |
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Visualizer: MichelaNGLo |
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PDB ID: 5f5c | Resolution: 1.88 Å | Exp. Method: X-RAY DIFFRACTION |
PMID: 26741168 | DOI: 10.1021/acs.jmedchem.5b01635 | |
Protein |
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Protein Name: Lysine-specific demethylase 4D | |
Protein Class: TRANSCRIPTION REGULATOR | |
Uniprot ID/ACC: Q6B0I6 (KDM4D_HUMAN) | Organism: Homo sapiens |
Gene Symbol: KDM4D | Gene ID: 55693 |
Pocket Descriptors | |
Volume: 874.816 | Depth: 18.6376 |
Hydrophobicity: 0.678571 | Drug Score: 0.732205 |
Pocket Similarity: Calculate |
Ligand |
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Ligand Name: 8-[[(phenylmethyl)amino]methyl]-1~{H}-pyrido[3,4-d]pyrimidin-4-one | ||
HET ID: 5V3 | PubChem: 135567116 | |
DrugBank: - | ChEMBL: CHEMBL3775615 | |
Canonical SMILES: O=c1nc[nH]c2c1ccnc2CNCc1ccccc1 | ||
Standard InChI: InChI=1S/C15H14N4O/c20-15-12-6-7-17-13(14(12)18-10-19-15)9-16-8-11-4-2-1-3-5-11/h1-7,10,16H,8-9H2,(H,18,19,20) | ||
Molecular Formula: C15H14N4O | Mol. Weight: 266.29785 | Heavy Atoms: 20 |
Charge: 0 | Is Chiral: False | logP: 1.9988 |
HBD: 2 | HBA: 4 | TPSA: 70.67 |
#Bonds: 23 | #Rotatable Bonds: 4 | Shape Complexity: 0.13333334 |
Stereocomplexity: 0.0 | Ligand Type: Small Molecule |
Binding Affinity |
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