5QIO Hydrolase Hydrolase Inhibitor date Aug 15, 2019
title Covalent Fragment Group Deposition -- Crystal Structure Of O Complex With P11
authors R.Sethi, A.Douangamath, E.Resnick, A.R.Bradley, P.Collins, J.Bran R.Talon, T.Krojer, C.Bountra, C.H.Arrowsmith, A.Edwards, N.Londo Delft
compound source
Molecule: Ubiquitin Thioesterase Otub2
Chain: A
Synonym: Deubiquitinating Enzyme Otub2,Otu Domain-Containin Ubiquitin Aldehyde-Binding Protein 2,Otubain-2,Ubiquitin-Sp Processing Protease Otub2;
Ec: 3.4.19.12
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Otub2, C14orf137, Otb2, Otu2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.173 R_Free 0.197
crystal
cell
length a length b length c angle alpha angle beta angle gamma
46.797 58.146 49.295 90.00 116.25 90.00
method X-Ray Diffractionresolution 1.46 Å
ligand J4Y, UNL enzyme Hydrolase E.C.3.4.19.12 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (47 Kb) [Save to disk]
  • Biological Unit Coordinates (5qio.pdb1.gz) 43 Kb
  • LPC: Ligand-Protein Contacts for 5QIO
  • CSU: Contacts of Structural Units for 5QIO
  • Structure Factors (1026 Kb)
  • Retrieve 5QIO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5QIO from S2C, [Save to disk]
  • View 5QIO 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 5QIO
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5qio from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5qio_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5QIO
  • Community annotation for 5QIO at PDBWiki (http://pdbwiki.org)

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