5LRU Hydrolase date Aug 22, 2016
title Structure Of Cezanneotud7b Otu Domain
authors T.E.T.Mevissen, Y.Kulathu, M.P.C.Mulder, P.P.Geurink, S.L.Maslen M.Gersch, P.R.Elliott, J.E.Burke, B.D.M.Van Tol, M.Akutsu, F.El M.Kawasaki, S.M.V.Freund, H.Ovaa, D.Komander
compound source
Molecule: Otu Domain-Containing Protein 7b
Chain: A
Synonym: Cellular Zinc Finger Anti-Nf-Kappa-B Protein,Zinc Domain-Containing Protein 1,Zinc Finger Protein Cezanne;
Ec: 3.4.19.12
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Otud7b, Za20d1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 41 21 2
R_factor 0.198 R_Free 0.219
crystal
cell
length a length b length c angle alpha angle beta angle gamma
103.349 103.349 90.199 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand
enzyme Hydrolase E.C.3.4.19.12 BRENDA
Primary referenceMolecular basis of Lys11-polyubiquitin specificity in the deubiquitinase Cezanne., Mevissen TE, Kulathu Y, Mulder MP, Geurink PP, Maslen SL, Gersch M, Elliott PR, Burke JE, van Tol BD, Akutsu M, El Oualid F, Kawasaki M, Freund SM, Ovaa H, Komander D, Nature. 2016 Oct 12;538(7625):402-405. doi: 10.1038/nature19836. PMID:27732584
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (98 Kb) [Save to disk]
  • Biological Unit Coordinates (5lru.pdb1.gz) 93 Kb
  • CSU: Contacts of Structural Units for 5LRU
  • Structure Factors (1659 Kb)
  • Retrieve 5LRU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5LRU from S2C, [Save to disk]
  • Re-refined 5lru structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5LRU 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 5LRU
  • 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: [5lru_A] [5lru]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5LRU
  • Community annotation for 5LRU at PDBWiki (http://pdbwiki.org)

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