6DXH Hydrolase date Jun 28, 2018
title Structure Of Usp5 Zinc-Finger Ubiquitin Binding Domain Co-Cr With 4-(4-Tert-Butylphenyl)-4-Oxobutanoate
authors R.J.Harding, M.K.Mann, M.Ravichandran, R.Ferreira De Freitas, I. C.Bountra, A.M.Edwards, C.H.Arrowsmith, M.Schapira, Structural Consortium (Sgc)
compound source
Molecule: Ubiquitin Carboxyl-Terminal Hydrolase 5
Chain: A
Fragment: Unp Residues 171-290
Synonym: Deubiquitinating Enzyme 5,Isopeptidase T,Ubiquitin Thioesterase 5,Ubiquitin-Specific-Processing Protease 5;
Ec: 3.4.19.12
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Usp5, Isot
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 (De3) Codon Plus
Expression_system_plasmid: Pet28-Mhl
symmetry Space Group: I 2 2 2
R_factor 0.214 R_Free 0.251
crystal
cell
length a length b length c angle alpha angle beta angle gamma
47.690 81.500 99.660 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand HH4, UNX, ZN enzyme Hydrolase E.C.3.4.19.12 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (25 Kb) [Save to disk]
  • Biological Unit Coordinates (6dxh.pdb1.gz) 20 Kb
  • LPC: Ligand-Protein Contacts for 6DXH
  • CSU: Contacts of Structural Units for 6DXH
  • Structure Factors (600 Kb)
  • Retrieve 6DXH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6DXH from S2C, [Save to disk]
    • View 6DXH 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 6DXH
  • 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: [6dxh_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6DXH
  • Community annotation for 6DXH at PDBWiki (http://pdbwiki.org)

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