4X8N Protein Binding date Dec 10, 2014
title Crystal Structure Of Ash2l Spry Domain In Complex With Phosp 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
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 347-356
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 2 21 21
R_factor 0.213 R_Free 0.277
length a length b length c angle alpha angle beta angle gamma
38.279 51.542 110.201 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand SEP 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] (67 Kb) [Save to disk]
  • Biological Unit Coordinates (4x8n.pdb1.gz) 63 Kb
  • LPC: Ligand-Protein Contacts for 4X8N
  • CSU: Contacts of Structural Units for 4X8N
  • Structure Factors (348 Kb)
  • Retrieve 4X8N in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4X8N from S2C, [Save to disk]
  • Re-refined 4x8n structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4X8N 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 4X8N
  • 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 4X8N, from MSDmotif at EBI
  • Fold representative 4x8n from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4x8n_A] [4x8n_B] [4x8n]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4X8N: [SPRY ] by SMART
  • Other resources with information on 4X8N
  • Community annotation for 4X8N at PDBWiki (http://pdbwiki.org)

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