2H13 Transcription date May 15, 2006
title Crystal Structure Of Wdr5histone H3 Complex
authors J.F.Couture, E.Collazo, R.C.Trievel
compound source
Molecule: Wd-Repeat Protein 5
Chain: A
Fragment: Residues 22-334
Synonym: Bmp2-Induced 3-Kb Gene Protein
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Wdr5
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Histone H3 Lys-4 Dimethylated
Chain: B
Engineered: Yes

Synthetic: Yes
Other_details: Chemically Synthesized. Occurs Naturally In Sapiens (Humans)
symmetry Space Group: C 2 2 21
R_factor 0.166 R_Free 0.200
length a length b length c angle alpha angle beta angle gamma
78.680 98.860 80.580 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.58 Å
ligand MLY enzyme

Primary referenceMolecular recognition of histone H3 by the WD40 protein WDR5., Couture JF, Collazo E, Trievel RC, Nat Struct Mol Biol. 2006 Aug;13(8):698-703. Epub 2006 Jul 9. PMID:16829960
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (63 Kb) [Save to disk]
  • Biological Unit Coordinates (2h13.pdb1.gz) 58 Kb
  • LPC: Ligand-Protein Contacts for 2H13
  • CSU: Contacts of Structural Units for 2H13
  • Likely Quarternary Molecular Structure file(s) for 2H13
  • Structure Factors (665 Kb)
  • Retrieve 2H13 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2H13 from S2C, [Save to disk]
  • Re-refined 2h13 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2H13 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 2H13
  • 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
  • 3D motif for 2H13, from MSDmotif at EBI
  • Fold representative 2h13 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2h13_B] [2h13_A] [2h13]
  • SWISS-PROT database: [P61964]
  • Domain organization of [WDR5_HUMAN] by SWISSPFAM
  • Domain found in 2H13: [WD40 ] by SMART
  • Other resources with information on 2H13
  • Community annotation for 2H13 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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