5HJD Transcription Peptide date Jan 13, 2016
title Af9 Yeats In Complex With Histone H3 Crotonylation At K18
authors Y.Y.Li, D.Zhao, H.P.Guan, H.T.Li
compound source
Molecule: Protein Af-9
Chain: A, C, E, G, K, N, Q, T
Fragment: Yeats Domain, Unp Residues 1-138
Synonym: All1-Fused Gene From Chromosome 9 Protein,Myeloid Or Mixed-Lineage Leukemia Translocated To Chromosome 3 Prot Domain-Containing Protein 3;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mllt3, Af9, Yeats3
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Peptide Of Histone H3.1
Chain: L, M, B, D, F, H, I, J
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1 21 1
R_factor 0.242 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
91.264 101.573 102.076 90.00 103.06 90.00
method X-Ray Diffractionresolution 2.81 Å
ligand CU, KCR, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, Q, T, N, C, K, G, E


Primary referenceMolecular Coupling of Histone Crotonylation and Active Transcription by AF9 YEATS Domain., Li Y, Sabari BR, Panchenko T, Wen H, Zhao D, Guan H, Wan L, Huang H, Tang Z, Zhao Y, Roeder RG, Shi X, Allis CD, Li H, Mol Cell. 2016 Apr 21;62(2):181-93. doi: 10.1016/j.molcel.2016.03.028. PMID:27105114
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (202 Kb) [Save to disk]
  • Biological Unit Coordinates (5hjd.pdb1.gz) 100 Kb
  • Biological Unit Coordinates (5hjd.pdb2.gz) 99 Kb
  • LPC: Ligand-Protein Contacts for 5HJD
  • CSU: Contacts of Structural Units for 5HJD
  • Structure Factors (869 Kb)
  • Retrieve 5HJD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5HJD from S2C, [Save to disk]
  • Re-refined 5hjd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5HJD 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 5HJD
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5hjd] [5hjd_Q] [5hjd_A] [5hjd_C] [5hjd_I] [5hjd_J] [5hjd_N] [5hjd_D] [5hjd_K] [5hjd_L] [5hjd_T] [5hjd_E] [5hjd_M] [5hjd_H] [5hjd_F] [5hjd_G] [5hjd_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5HJD
  • Community annotation for 5HJD at PDBWiki (http://pdbwiki.org)

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science