4X9J EGR-1 with Doubly Methylated DNA date
authors White, M.A., Zandarashvili, L., Iwahara, J.
compound source
symmetry
R_factor
R_Free 0.2002
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.41
ligand 5CM, ZN enzyme
Primary referenceStructural impact of complete CpG methylation within target DNA on specific complex formation of the inducible transcription factor Egr-1., Zandarashvili L, White MA, Esadze A, Iwahara J, FEBS Lett. 2015 May 19. pii: S0014-5793(15)00398-1. doi:, 10.1016/j.febslet.2015.05.022. PMID:25999311
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (77 Kb) [Save to disk]
  • Biological Unit Coordinates (4x9j.pdb1.gz) 69 Kb
  • LPC: Ligand-Protein Contacts for 4X9J
  • CSU: Contacts of Structural Units for 4X9J
  • Structure Factors (687 Kb)
  • Retrieve 4X9J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4X9J from S2C, [Save to disk]
  • Re-refined 4x9j structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4X9J 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 4X9J
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 4X9J, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4x9j_C] [4x9j_B] [4x9j_A] [4x9j]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4X9J: [ZnF_C2H2 ] by SMART
    • Other resources with information on 4X9J
  • Community annotation for 4X9J at PDBWiki (http://pdbwiki.org)

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