5KH3	Hydrolase	date	Jun 14, 2016
title	Crystal Structure Of Fragment (3-(5-Chloro-1,3-Benzothiazol- Propanoic Acid) Bound In The Ubiquitin Binding Pocket Of Th Zinc-Finger Domain
authors	R.J.Harding, A.Dong, M.Ravichandran, R.Ferreira De Freitas, M.Sc C.Bountra, A.M.Edwards, V.Santhakumar, C.M.Arrowsmith, Structur Genomics Consortium (Sgc)
compound		source
Molecule: Histone Deacetylase 6 Chain: A Synonym: Hd6 Ec: 3.5.1.98 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hdac6, Kiaa0901, Jm21 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21 (De3) Codon Plus Expression_system_plasmid: Pet28-Lic
symmetry	Space Group: P 21 21 21	R_factor 0.157 R_Free 0.191
crystal cell	length a length b length c angle alpha angle beta angle gamma 40.700 44.027 55.895 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.60 Å
ligand	6U6, UNX, ZN	enzyme	Hydrolase E.C.3.5.1.98 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Small Molecule Antagonists of the Interaction between the Histone Deacetylase 6 Zinc-Finger Domain and Ubiquitin., Harding RJ, Ferreira de Freitas R, Collins P, Franzoni I, Ravichandran M, Ouyang H, Juarez-Ornelas KA, Lautens M, Schapira M, von Delft F, Santhakumar V, Arrowsmith CH, J Med Chem. 2017 Nov 9;60(21):9090-9096. doi: 10.1021/acs.jmedchem.7b00933. Epub , 2017 Oct 27. PMID:29019676

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (25 Kb) [Save to disk] Biological Unit Coordinates (5kh3.pdb1.gz) 20 Kb LPC: Ligand-Protein Contacts for 5KH3 CSU: Contacts of Structural Units for 5KH3 Structure Factors (2083 Kb) Retrieve 5KH3 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5KH3 from S2C, [Save to disk] Re-refined 5kh3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5KH3 in 3D

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Visual 3D analysis of 5KH3

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5kh3] [5kh3_A] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 5KH3: [ZnF_UBP ] by SMART

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