3EWF	Hydrolase	date	Oct 14, 2008
title	Crystal Structure Analysis Of Human Hdac8 H143a Variant Comp Substrate.
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, D Synonym: Hd8 Ec: 3.5.1.98 Engineered: Yes Mutation: 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
Molecule: Peptidic Substrate Chain: I, J, K, L Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
symmetry	Space Group: P 21 21 21	R_factor 0.198 R_Free 0.229
crystal cell	length a length b length c angle alpha angle beta angle gamma 82.903 91.844 196.577 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	ACE, ALY, K, MCM, ZN	enzyme	Hydrolase E.C.3.5.1.98 BRENDA
Gene Ontology	Chain Function Process Component A, D, 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] (242 Kb) [Save to disk] Biological Unit Coordinates (3ewf.pdb1.gz) 233 Kb Biological Unit Coordinates (3ewf.pdb2.gz) 62 Kb Biological Unit Coordinates (3ewf.pdb3.gz) 62 Kb Biological Unit Coordinates (3ewf.pdb4.gz) 62 Kb Biological Unit Coordinates (3ewf.pdb5.gz) 62 Kb LPC: Ligand-Protein Contacts for 3EWF CSU: Contacts of Structural Units for 3EWF Likely Quarternary Molecular Structure file(s) for 3EWF Structure Factors (393 Kb) Retrieve 3EWF in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3EWF from S2C, [Save to disk] Re-refined 3ewf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3EWF in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 3EWF

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 3EWF, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3ewf_C] [3ewf_K] [3ewf_B] [3ewf_J] [3ewf_A] [3ewf_L] [3ewf_D] [3ewf] [3ewf_I] SWISS-PROT database: [Q9BY41] Domain organization of [HDAC8_HUMAN] by SWISSPFAM

Other resources with information on 3EWF

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

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