4GZ6 Crystal structure of human O-GlcNAc Transferase with UDP-5SGlcNAc date 2012-09-06
authors Lazarus, M.B., Jiang, J., Gloster, T.M., Zandberg, W.F., Vocadlo, D.J., Walker, S.
compound source
symmetry
R_factor
R_Free 0.2229
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.98
ligand 12V, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceStructural snapshots of the reaction coordinate for O-GlcNAc transferase., Lazarus MB, Jiang J, Gloster TM, Zandberg WF, Whitworth GE, Vocadlo DJ, Walker S, Nat Chem Biol. 2012 Dec;8(12):966-8. doi: 10.1038/nchembio.1109. Epub 2012 Oct, 28. PMID:23103939
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (949 Kb) [Save to disk]
  • Biological Unit Coordinates (4gz6.pdb1.gz) 240 Kb
  • Biological Unit Coordinates (4gz6.pdb2.gz) 240 Kb
  • Biological Unit Coordinates (4gz6.pdb3.gz) 241 Kb
  • Biological Unit Coordinates (4gz6.pdb4.gz) 240 Kb
  • Biological Unit Coordinates (4gz6.pdb5.gz) 2808 Kb
  • LPC: Ligand-Protein Contacts for 4GZ6
  • CSU: Contacts of Structural Units for 4GZ6
  • Structure Factors (995 Kb)
  • Retrieve 4GZ6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4GZ6 from S2C, [Save to disk]
  • Re-refined 4gz6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4GZ6 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 4GZ6
  • 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 4GZ6, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4gz6_B] [4gz6] [4gz6_D] [4gz6_C] [4gz6_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4GZ6: [TPR ] by SMART
    • Other resources with information on 4GZ6
  • Community annotation for 4GZ6 at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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