5H15 Transferase Transferase Inhibitor date Oct 08, 2016
title Eed In Complex With Prc2 Allosteric Inhibitor Eed709
authors K.Zhao, M.Zhao, X.Luo, H.Zhang
compound source
Molecule: Polycomb Protein Eed
Chain: A, B
Fragment: Unp Residues 76-441
Synonym: Heed,Wd Protein Associating With Integrin Cytoplas 1,Wait-1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Eed
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-Kg

Molecule: Histone-Lysine N-Methyltransferase Ezh2
Chain: C, D
Fragment: Unp Residues 40-68
Synonym: Enx-1,Enhancer Of Zeste Homolog 2,Lysine N-Methylt 6;
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 21 21 2
R_factor 0.183 R_Free 0.236
length a length b length c angle alpha angle beta angle gamma
93.497 179.130 50.556 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.27 Å
ligand LQD enzyme Transferase E.C. BRENDA
A, B

D, C

Primary referenceDiscovery and Molecular Basis of a Diverse Set of Polycomb Repressive Complex 2 Inhibitors Recognition by EED., Li L, Zhang H, Zhang M, Zhao M, Feng L, Luo X, Gao Z, Huang Y, Ardayfio O, Zhang JH, Lin Y, Fan H, Mi Y, Li G, Liu L, Feng L, Luo F, Teng L, Qi W, Ottl J, Lingel A, Bussiere DE, Yu Z, Atadja P, Lu C, Li E, Gu J, Zhao K, PLoS One. 2017 Jan 10;12(1):e0169855. doi: 10.1371/journal.pone.0169855., eCollection 2017. PMID:28072869
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (141 Kb) [Save to disk]
  • Biological Unit Coordinates (5h15.pdb1.gz) 68 Kb
  • Biological Unit Coordinates (5h15.pdb2.gz) 71 Kb
  • LPC: Ligand-Protein Contacts for 5H15
  • CSU: Contacts of Structural Units for 5H15
  • Structure Factors (1025 Kb)
  • Retrieve 5H15 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5H15 from S2C, [Save to disk]
  • Re-refined 5h15 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5H15 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 5H15
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5h15 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5h15] [5h15_B] [5h15_A] [5h15_C] [5h15_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5H15
  • Community annotation for 5H15 at PDBWiki (http://pdbwiki.org)

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