5FWI Hydrolase date Feb 17, 2016
title Structure Of Usp7 Catalytic Domain And Three Ubl-Domains
authors R.Q.Kim, W.J.Van Dijk, T.K.Sixma
compound source
Molecule: Ubiquitin Carboxyl-Terminal Hydrolase 7
Chain: C
Fragment: Residues 207-882
Synonym: Deubiquitinating Enzyme 7, Herpesvirus-Associated -Specific Protease, Ubiquitin Thioesterase 7, Ubiquitin-Spe Rocessing Protease 7, Usp7;
Ec: 3.4.19.12
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_vector: Pgex6p-1
symmetry Space Group: F 2 2 2
R_factor 0.222 R_Free 0.267
crystal
cell
length a length b length c angle alpha angle beta angle gamma
115.183 195.040 219.780 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.40 Å
ligand
enzyme Hydrolase E.C.3.4.19.12 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
C


Primary referenceStructure of USP7 catalytic domain and three Ubl-domains reveals a connector alpha-helix with regulatory role., Kim RQ, van Dijk WJ, Sixma TK, J Struct Biol. 2016 Jul;195(1):11-8. doi: 10.1016/j.jsb.2016.05.005. Epub 2016, May 13. PMID:27183903
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (236 Kb) [Save to disk]
  • Biological Unit Coordinates (5fwi.pdb1.gz) 231 Kb
  • CSU: Contacts of Structural Units for 5FWI
  • Structure Factors (937 Kb)
  • Retrieve 5FWI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5FWI from S2C, [Save to disk]
  • Re-refined 5fwi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5FWI 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 5FWI
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5fwi_C] [5fwi]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5FWI
  • Community annotation for 5FWI at PDBWiki (http://pdbwiki.org)

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