PDB Entry (5ceh)

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Visualizer: MichelaNGLo

PDB ID: 5ceh Resolution: 3.14 Å Exp. Method: X-RAY DIFFRACTION
PMID: 27214401 DOI: 10.1038/nchembio.2085
Protein
Protein Name: Lysine-specific demethylase 5A
Protein Class: TRANSCRIPTION REGULATOR
Uniprot ID/ACC: P29375 (KDM5A_HUMAN) Organism: Homo sapiens
Gene Symbol: KDM5A Gene ID: 5927
Pocket Descriptors
Volume: 289.792 Depth: 15.6326
Hydrophobicity: 0.669811 Drug Score: 0.204093
Pocket Similarity: Calculate
Ligand
Ligand Name:   7-oxo-5-phenyl-6-(propan-2-yl)-4,7-dihydropyrazolo[1,5-a]pyrimidine-3-carbonitrile
HET ID:   50P PubChem:   78426698
DrugBank:   - ChEMBL:   -
Canonical SMILES:   N#Cc1cnn2c1[nH]c(c1ccccc1)c(c2=O)C(C)C
Standard InChI:   InChI=1S/C16H14N4O/c1-10(2)13-14(11-6-4-3-5-7-11)19-15-12(8-17)9-18-20(15)16(13)21/h3-7,9-10,19H,1-2H3
Molecular Formula:   C16H14N4O Mol. Weight:   278.30856 Heavy Atoms:   21
Charge:   0 Is Chiral:   False logP:   2.68468
HBD:   1 HBA:   4 TPSA:   73.95
#Bonds:   24 #Rotatable Bonds:   2 Shape Complexity:   0.2
Stereocomplexity:   0.0 Ligand Type:   Small Molecule
Binding Affinity
Database Name Value
BindingDB IC50 : 10(20)nM