3VUY	Protein Binding Metal Binding Protein	date	Jul 09, 2012
title	Crystal Structure Of A20 Zf7 In Complex With Linear Tetraubi
authors	H.Nishimasu, R.Ishitani, O.Nureki
compound		source
Molecule: Polyubiquitin-C Chain: A, C, B Fragment: Ubiquitin Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ubc Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Rosetta2(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pt7
Molecule: Tumor Necrosis Factor Alpha-Induced Protein 3 Chain: D, F, E Fragment: A20-Type 7 Zinc Finger Domain, Residues 757-790 Synonym: Tnf Alpha-Induced Protein 3, Otu Domain-Containing 7c, Putative Dna-Binding Protein A20, Zinc Finger Protein A Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Tnfaip3 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Rosetta2(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex-6p-1
symmetry	Space Group: P 31	R_factor 0.216 R_Free 0.255
crystal cell	length a length b length c angle alpha angle beta angle gamma 62.438 62.438 85.355 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	1.98 Å
ligand	K, ZN	enzyme
Gene Ontology	Chain Function Process Component F, D, E
Primary reference	Specific recognition of linear polyubiquitin by A20 zinc finger 7 is involved in NF-kappaB regulation., Tokunaga F, Nishimasu H, Ishitani R, Goto E, Noguchi T, Mio K, Kamei K, Ma A, Iwai K, Nureki O, EMBO J. 2012 Oct 3;31(19):3856-70. doi: 10.1038/emboj.2012.241. Epub 2012 Aug 28. PMID:23032187

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (115 Kb) [Save to disk] Biological Unit Coordinates (3vuy.pdb1.gz) 39 Kb Biological Unit Coordinates (3vuy.pdb2.gz) 37 Kb Biological Unit Coordinates (3vuy.pdb3.gz) 36 Kb LPC: Ligand-Protein Contacts for 3VUY CSU: Contacts of Structural Units for 3VUY Structure Factors (216 Kb) Retrieve 3VUY in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3VUY from S2C, [Save to disk] Re-refined 3vuy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3VUY 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 3VUY

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 3VUY, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3vuy_C] [3vuy_E] [3vuy_A] [3vuy_B] [3vuy_F] [3vuy_D] [3vuy] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 3VUY: [UBQ] [ZnF_A20 ] by SMART

Other resources with information on 3VUY

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

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