4XI9 Human OGT in complex with UDP-5S-GlcNAc and substrate peptide (RBL2) date
authors Schimpl, M., Aalten, D.M.F.van.
compound source
symmetry
R_factor
R_Free 0.22346
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.10
ligand 12V enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceThe active site of O-GlcNAc transferase imposes constraints on substrate sequence., Pathak S, Alonso J, Schimpl M, Rafie K, Blair DE, Borodkin VS, Schuttelkopf AW, Albarbarawi O, van Aalten DM, Nat Struct Mol Biol. 2015 Aug 3. doi: 10.1038/nsmb.3063. PMID:26237509
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (455 Kb) [Save to disk]
  • Biological Unit Coordinates (4xi9.pdb1.gz) 117 Kb
  • Biological Unit Coordinates (4xi9.pdb2.gz) 117 Kb
  • Biological Unit Coordinates (4xi9.pdb3.gz) 117 Kb
  • Biological Unit Coordinates (4xi9.pdb4.gz) 117 Kb
  • LPC: Ligand-Protein Contacts for 4XI9
  • CSU: Contacts of Structural Units for 4XI9
  • Structure Factors (2089 Kb)
  • Retrieve 4XI9 in mmCIF format [Save to disk]
  • Re-refined 4xi9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4XI9 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 4XI9
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4xi9_D] [4xi9] [4xi9_G] [4xi9_A] [4xi9_H] [4xi9_B] [4xi9_F] [4xi9_C] [4xi9_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4XI9: [TPR ] by SMART
    • Other resources with information on 4XI9
  • Community annotation for 4XI9 at PDBWiki (http://pdbwiki.org)

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