3SFF	Hydrolase Hydrolase Inhibitor	date	Jun 13, 2011
title	Crystal Structure Of Human Hdac8 Inhibitor Complex, An Amino Derived Inhibitor
authors	T.Stams, B.Vash
compound		source
Molecule: Histone Deacetylase 8 Chain: A Synonym: Hdac8, Hd8 Ec: 3.5.1.98 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hdac8, Hdacl1, Cda07 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_strain: Sf9 Expression_system_vector_type: Baculovirus Expression_system_plasmid: Npl007254
symmetry	Space Group: P 1 21 1	R_factor 0.177 R_Free 0.221
crystal cell	length a length b length c angle alpha angle beta angle gamma 57.812 53.668 61.338 90.00 108.99 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	0DI, K, ZN BindingDB	enzyme	Hydrolase E.C.3.5.1.98 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Human HDAC isoform selectivity achieved via exploitation of the acetate release channel with structurally unique small molecule inhibitors., Whitehead L, Dobler MR, Radetich B, Zhu Y, Atadja PW, Claiborne T, Grob JE, McRiner A, Pancost MR, Patnaik A, Shao W, Shultz M, Tichkule R, Tommasi RA, Vash B, Wang P, Stams T, Bioorg Med Chem. 2011 Aug 1;19(15):4626-34. Epub 2011 Jun 15. PMID:21723733

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (64 Kb) [Save to disk] Biological Unit Coordinates (3sff.pdb1.gz) 59 Kb LPC: Ligand-Protein Contacts for 3SFF CSU: Contacts of Structural Units for 3SFF Structure Factors (511 Kb) Retrieve 3SFF in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3SFF from S2C, [Save to disk] Re-refined 3sff structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3SFF 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 3SFF

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 3SFF, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3sff] [3sff_A] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 3SFF

Community annotation for 3SFF at PDBWiki (http://pdbwiki.org)

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