PDB Entry (6wyp)

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Visualizer: MichelaNGLo

PDB ID: 6wyp Resolution: 2.4 Å Exp. Method: X-RAY DIFFRACTION
PMID: 32880591 DOI: 10.1107/S2053230X20010250
Protein
Protein Name: Histone deacetylase 6
Protein Class: TRANSCRIPTION REGULATOR
Uniprot ID/ACC: F8W4B7 (F8W4B7_DANRE) Organism: Danio rerio
Gene Symbol: hdac6 Gene ID: 565482
Pocket Descriptors
Volume: 254.848 Depth: 13.121
Hydrophobicity: 0.71875 Drug Score: 0.533778
Pocket Similarity: Calculate
Ligand
Ligand Name:   N~1~-(4-{4-[(hex-5-ynoyl)amino]benzene-1-carbonyl}phenyl)-N~8~-hydroxyoctanediamide
HET ID:   UFS PubChem:   90276494
DrugBank:   - ChEMBL:   -
Canonical SMILES:   C#CCCCC(=O)Nc1ccc(cc1)C(=O)c1ccc(cc1)NC(=O)CCCCCCC(=O)NO
Standard InChI:   InChI=1S/C27H31N3O5/c1-2-3-6-9-24(31)28-22-16-12-20(13-17-22)27(34)21-14-18-23(19-15-21)29-25(32)10-7-4-5-8-11-26(33)30-35/h1,12-19,35H,3-11H2,(H,28,31)(H,29,32)(H,30,33)
Molecular Formula:   C27H31N3O5 Mol. Weight:   477.55215 Heavy Atoms:   35
Charge:   0 Is Chiral:   False logP:   4.981
HBD:   4 HBA:   8 TPSA:   124.6
#Bonds:   36 #Rotatable Bonds:   17 Shape Complexity:   0.36
Stereocomplexity:   0.0 Ligand Type:   Small Molecule
Binding Affinity
-