6H4H Hydrolase date Jul 21, 2018
title Usp28 Catalytic Domain Variant E593d In Complex With Ubpa
authors T.A.Klemm, F.Sauer, C.Kisker
compound source
Molecule: Ubiquitin Carboxyl-Terminal Hydrolase 28
Chain: A, B
Synonym: Deubiquitinating Enzyme 28,Ubiquitin Thioesterase Ubiquitin-Specific-Processing Protease 28;
Ec: 3.4.19.12
Engineered: Yes
Mutation: Yes
Other_details: Catalytic Domain Variant E593d
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Usp28, Kiaa1515
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Polyubiquitin-B
Chain: C, D
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ubb
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
symmetry Space Group: C 2 2 21
R_factor 0.232 R_Free 0.280
crystal
cell
length a length b length c angle alpha angle beta angle gamma
171.745 213.644 98.556 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.50 Å
ligand AYE, SO4 enzyme Hydrolase E.C.3.4.19.12 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceDifferential Oligomerization of the Deubiquitinases USP25 and USP28 Regulates Their Activities., Sauer F, Klemm T, Kollampally RB, Tessmer I, Nair RK, Popov N, Kisker C, Mol Cell. 2019 Mar 22. pii: S1097-2765(19)30140-6. doi:, 10.1016/j.molcel.2019.02.029. PMID:30926243
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (380 Kb) [Save to disk]
  • Biological Unit Coordinates (6h4h.pdb1.gz) 369 Kb
  • LPC: Ligand-Protein Contacts for 6H4H
  • CSU: Contacts of Structural Units for 6H4H
  • Structure Factors (976 Kb)
  • Retrieve 6H4H in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6H4H from S2C, [Save to disk]
  • View 6H4H 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 6H4H
  • 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: [6h4h_B] [6h4h_C] [6h4h_A] [6h4h_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6H4H
  • Community annotation for 6H4H at PDBWiki (http://pdbwiki.org)

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