2ZFY	Hydrolase	date	Jan 16, 2008
title	Crystal Structure Of Human Otubain 1
authors	M.Akutsu, J.R.Walker, Y.Li, J.Weigelt, C.H.Arrowsmith, A.M.Edward A.Bochkarev, S.Dhe-Paganon, Structural Genomics Consortium (S
compound		source
Molecule: Ubiquitin Thioesterase Otub1 Chain: A Fragment: Residues 40-271 Synonym: Otubain-1, Otu Domain-Containing Ubiquitin Aldehyd Protein 1, Ubiquitin-Specific-Processing Protease Otub1, Deubiquitinating Enzyme Otub1; Ec: 3.1.2.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Otub1, Otb1, Otu1 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28a-Lic
symmetry	Space Group: C 1 2 1	R_factor 0.192 R_Free 0.239
crystal cell	length a length b length c angle alpha angle beta angle gamma 81.250 50.886 54.722 90.00 101.96 90.00
method	X-Ray Diffraction	resolution	1.69 Å
ligand		enzyme	Hydrolase E.C.3.1.2 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Structural basis and specificity of human otubain 1 mediated deubiquitylation., Edelmann MJ, Iphoefer A, Akutsu M, Altun M, di Gleria K, Kramer HB, Fiebiger E, Dhe-Paganon S, Kessler BM, Biochem J. 2008 Oct 27. PMID:18954305

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk] Biological Unit Coordinates (2zfy.pdb1.gz) 77 Kb CSU: Contacts of Structural Units for 2ZFY Likely Quarternary Molecular Structure file(s) for 2ZFY Structure Factors (318 Kb) Retrieve 2ZFY in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2ZFY from S2C, [Save to disk] Re-refined 2zfy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2ZFY 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 2ZFY

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 2ZFY, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2zfy_A] [2zfy] SWISS-PROT database: [Q96FW1] Domain organization of [OTUB1_HUMAN] by SWISSPFAM

Other resources with information on 2ZFY

Community annotation for 2ZFY at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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