3F07	Hydrolase	date	Oct 24, 2008
title	Crystal Structure Analysis Of Human Hdac8 Complexed With Aph Monoclinic Crystal Form
authors	D.P.Dowling, S.L.Gantt, S.G.Gattis, C.A.Fierke, D.W.Christianson
compound		source
Molecule: Histone Deacetylase 8 Chain: A, B, C Synonym: Hd8 Ec: 3.5.1.98 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Cda07, Hdac8, Hdacl1 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Phd2-Xa-His
symmetry	Space Group: P 1 21 1	R_factor 0.216 R_Free 0.260
crystal cell	length a length b length c angle alpha angle beta angle gamma 88.381 90.171 92.267 90.00 94.74 90.00
method	X-Ray Diffraction	resolution	3.30 Å
ligand	AGE, K, ZN	enzyme	Hydrolase E.C.3.5.1.98 BRENDA
Gene Ontology	Chain Function Process Component A, C, B
Primary reference	Structural studies of human histone deacetylase 8 and its site-specific variants complexed with substrate and inhibitors., Dowling DP, Gantt SL, Gattis SG, Fierke CA, Christianson DW, Biochemistry. 2008 Dec 23;47(51):13554-63. PMID:19053282

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (174 Kb) [Save to disk] Biological Unit Coordinates (3f07.pdb1.gz) 59 Kb Biological Unit Coordinates (3f07.pdb2.gz) 60 Kb Biological Unit Coordinates (3f07.pdb3.gz) 55 Kb LPC: Ligand-Protein Contacts for 3F07 CSU: Contacts of Structural Units for 3F07 Likely Quarternary Molecular Structure file(s) for 3F07 Structure Factors (168 Kb) Retrieve 3F07 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3F07 from S2C, [Save to disk] Re-refined 3f07 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

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Visual 3D analysis of 3F07

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 3F07, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3f07_C] [3f07_A] [3f07] [3f07_B] SWISS-PROT database: [Q9BY41] Domain organization of [HDAC8_HUMAN] by SWISSPFAM

Other resources with information on 3F07

Community annotation for 3F07 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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