PDB Entry (5ive) Download |
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Visualizer: MichelaNGLo |
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PDB ID: 5ive | Resolution: 1.78 Å | Exp. Method: X-RAY DIFFRACTION |
PMID: 27427228 | DOI: 10.1016/j.chembiol.2016.06.006 | |
Protein |
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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: 2086.02 | Depth: 39.1714 |
Hydrophobicity: 0.677108 | Drug Score: 0.999628 |
Pocket Similarity: Calculate |
Ligand |
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Ligand Name: 5-methyl-7-oxo-6-(propan-2-yl)-4,7-dihydropyrazolo[1,5-a]pyrimidine-3-carbonitrile | ||
HET ID: 6E8 | PubChem: 82273434 | |
DrugBank: - | ChEMBL: - | |
Canonical SMILES: N#Cc1cnn2c1[nH]c(C)c(c2=O)C(C)C | ||
Standard InChI: InChI=1S/C11H12N4O/c1-6(2)9-7(3)14-10-8(4-12)5-13-15(10)11(9)16/h5-6,14H,1-3H3 | ||
Molecular Formula: C11H12N4O | Mol. Weight: 216.23918 | Heavy Atoms: 16 |
Charge: 0 | Is Chiral: False | logP: 1.32608 |
HBD: 1 | HBA: 4 | TPSA: 73.95 |
#Bonds: 18 | #Rotatable Bonds: 1 | Shape Complexity: 0.4 |
Stereocomplexity: 0.0 | Ligand Type: Small Molecule |
Binding Affinity |
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Database Name | Value |
BindingDB | Kd : 27 nM, Kd : 20 nM, Kd : 1500 nM, Kd : 490 nM |
Binding MOAD | Kd : 27 nM |