3ICU Ligase date Jul 18, 2009
title Protease-Associated Domain Of The E3 Ligase Grail
authors J.R.Walker, L.Yermekbayeva, A.Seitova, J.Weigelt, C.Bountra, C.H.Arrowsmith, A.M.Edwards, A.Bochkarev, S.Dhe-Paganon, Struct Genomics Consortium (Sgc)
compound source
Molecule: E3 Ubiquitin-Protein Ligase Rnf128
Chain: A
Fragment: Unp Residues 38-204
Synonym: Ring Finger Protein 128, Gene Related To Energy In Lymphocytes Protein;
Ec: 6.3.2.-
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Grail, Rnf128
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_strain: Sf9
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pfhmsp-Lic-N
symmetry Space Group: P 43 21 2
R_factor 0.195 R_Free 0.218
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.795 65.795 136.524 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand NAG enzyme Ligase E.C.6.3.2 BRENDA
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (65 Kb) [Save to disk]
  • Biological Unit Coordinates (3icu.pdb1.gz) 120 Kb
  • LPC: Ligand-Protein Contacts for 3ICU
  • CSU: Contacts of Structural Units for 3ICU
  • Structure Factors (241 Kb)
  • Retrieve 3ICU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3ICU from S2C, [Save to disk]
  • Re-refined 3icu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3ICU 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 3ICU
  • 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
  • 3D motif for 3ICU, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3icu_A] [3icu]
  • SWISS-PROT database: [Q8TEB7]
  • Domain organization of [RN128_HUMAN] by SWISSPFAM
    • Other resources with information on 3ICU
  • Community annotation for 3ICU at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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