4X8P Protein Binding date Dec 10, 2014
title Crystal Structure Of Ash2l Spry Domain In Complex With Rbbp5
authors P.Zhang, C.P.Chaturvedi, J.S.Brunzelle, G.Skiniotis, M.Brand, A.Shilatifard, J.F.Couture
compound source
Molecule: Set1ash2 Histone Methyltransferase Complex Subun Set1ash2 Histone Methyltransferase Complex Subunit Ash2;
Chain: A
Fragment: Unp Residues 380-495, 539-598
Synonym: Ash2-Like Protein,Ash2-Like Protein
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ash2l, Ash2l1
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Retinoblastoma-Binding Protein 5
Chain: B
Fragment: Unp Residues 344-355
Synonym: Rbbp-5,Retinoblastoma-Binding Protein Rbq-3
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 21 21 21
R_factor 0.220 R_Free 0.271
length a length b length c angle alpha angle beta angle gamma
51.500 59.100 70.800 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand GOL enzyme

Primary referenceA phosphorylation switch on RbBP5 regulates histone H3 Lys4 methylation., Zhang P, Chaturvedi CP, Tremblay V, Cramet M, Brunzelle JS, Skiniotis G, Brand M, Shilatifard A, Couture JF, Genes Dev. 2015 Jan 15;29(2):123-8. doi: 10.1101/gad.254870.114. PMID:25593305
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (37 Kb) [Save to disk]
  • Biological Unit Coordinates (4x8p.pdb1.gz) 33 Kb
  • LPC: Ligand-Protein Contacts for 4X8P
  • CSU: Contacts of Structural Units for 4X8P
  • Structure Factors (280 Kb)
  • Retrieve 4X8P in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4X8P from S2C, [Save to disk]
  • Re-refined 4x8p structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4X8P 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 4X8P
  • 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 4X8P, from MSDmotif at EBI
  • Fold representative 4x8p from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4x8p_B] [4x8p] [4x8p_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4X8P: [SPRY ] by SMART
  • Other resources with information on 4X8P
  • Community annotation for 4X8P at PDBWiki (http://pdbwiki.org)

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