5DY4	Hydrolase	date	Sep 24, 2015
title	Crystal Structure Of Human Sirt2 In Complex With A Brominate Generation Sirreal Inhibitor And Nad+
authors	T.Rumpf, S.Gerhardt, O.Einsle, M.Jung
compound		source
Molecule: Nad-Dependent Protein Deacetylase Sirtuin-2 Chain: A Fragment: Residues 56-356 Synonym: Regulatory Protein Sir2 Homolog 2,Sir2-Like Protei Ec: 3.5.1.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Sirt2, Sir2l, Sir2l2 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_variant: Codonplus Ripl Expression_system_vector_type: Plasmid Expression_system_plasmid: Modified Pet15b
symmetry	Space Group: I 1 2 1	R_factor 0.175 R_Free 0.213
crystal cell	length a length b length c angle alpha angle beta angle gamma 84.303 55.432 96.176 90.00 114.91 90.00
method	X-Ray Diffraction	resolution	1.77 Å
ligand	5GN, NAD, ZN	enzyme	Hydrolase E.C.3.5.1 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Aminothiazoles as Potent and Selective Sirt2 Inhibitors: A Structure-Activity Relationship Study., Schiedel M, Rumpf T, Karaman B, Lehotzky A, Olah J, Gerhardt S, Ovadi J, Sippl W, Einsle O, Jung M, J Med Chem. 2016 Jan 7. PMID:26696402

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (105 Kb) [Save to disk] Biological Unit Coordinates (5dy4.pdb1.gz) 198 Kb Biological Unit Coordinates (5dy4.pdb2.gz) 100 Kb LPC: Ligand-Protein Contacts for 5DY4 CSU: Contacts of Structural Units for 5DY4 Structure Factors (721 Kb) Retrieve 5DY4 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5DY4 from S2C, [Save to disk] Re-refined 5dy4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5DY4 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 5DY4

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

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5dy4_A] [5dy4] SWISS-PROT database: Domain organization of by SWISSPFAM

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Community annotation for 5DY4 at PDBWiki (http://pdbwiki.org)

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