4C1Q Crystal structure of the PRDM9 SET domain in complex with H3K4me2 and AdoHcy. date
authors Mathioudakis, N., Cusack, S., Kadlec, J.
compound source
symmetry
R_factor
R_Free 0.25223
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.30
ligand GOL, MLY, SAH, ZN enzyme
Primary referenceMolecular Basis for the Regulation of the H3K4 Methyltransferase Activity of PRDM9., Wu H, Mathioudakis N, Diagouraga B, Dong A, Dombrovski L, Baudat F, Cusack S, de Massy B, Kadlec J, Cell Rep. 2013 Oct 2. pii: S2211-1247(13)00476-2. doi:, 10.1016/j.celrep.2013.08.035. PMID:24095733
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (63 Kb) [Save to disk]
  • Biological Unit Coordinates (4c1q.pdb1.gz) 31 Kb
  • Biological Unit Coordinates (4c1q.pdb2.gz) 29 Kb
  • LPC: Ligand-Protein Contacts for 4C1Q
  • CSU: Contacts of Structural Units for 4C1Q
  • Structure Factors (402 Kb)
  • Retrieve 4C1Q in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4C1Q from S2C, [Save to disk]
  • Re-refined 4c1q structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4C1Q 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 4C1Q
  • 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 4C1Q, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4c1q] [4c1q_C] [4c1q_A] [4c1q_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4C1Q: [SET ] by SMART
    • Other resources with information on 4C1Q
  • Community annotation for 4C1Q at PDBWiki (http://pdbwiki.org)

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