3O35 Transcription Protein Binding date Jul 23, 2010
title Crystal Structure Of Trim24 Phd-Bromo Complexed With H3(23-3 Peptide
authors Z.Wang, D.J.Patel
compound source
Molecule: Transcription Intermediary Factor 1-Alpha
Chain: A, B
Fragment: Unp Residues 824-1006
Synonym: Tif1-Alpha, Tripartite Motif-Containing Protein 24 Finger Protein 82;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Trim24, Rnf82, Tif1, Tif1a
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Prsfduet-1

Molecule: Histone H3.1
Chain: D, E
Fragment: Unp Residues 14 -22
Synonym: H3(23-31)K27ac Histone Peptide
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: This Sequence Occurs Naturally In Humans
symmetry Space Group: C 1 2 1
R_factor 0.206 R_Free 0.225
crystal
cell
length a length b length c angle alpha angle beta angle gamma
89.632 36.498 128.824 90.00 109.99 90.00
method X-Ray Diffractionresolution 1.76 Å
ligand ALY, ZN enzyme
Primary referenceTRIM24 links a non-canonical histone signature to breast cancer., Tsai WW, Wang Z, Yiu TT, Akdemir KC, Xia W, Winter S, Tsai CY, Shi X, Schwarzer D, Plunkett W, Aronow B, Gozani O, Fischle W, Hung MC, Patel DJ, Barton MC, Nature. 2010 Dec 16;468(7326):927-32. PMID:21164480
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (69 Kb) [Save to disk]
  • Biological Unit Coordinates (3o35.pdb1.gz) 34 Kb
  • Biological Unit Coordinates (3o35.pdb2.gz) 33 Kb
  • LPC: Ligand-Protein Contacts for 3O35
  • CSU: Contacts of Structural Units for 3O35
  • Structure Factors (323 Kb)
  • Retrieve 3O35 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3O35 from S2C, [Save to disk]
  • Re-refined 3o35 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3O35 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 3O35
  • 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 3O35, from MSDmotif at EBI
  • Fold representative 3o35 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3o35_A] [3o35] [3o35_D] [3o35_B] [3o35_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3O35: [BROMO] [PHD ] by SMART
  • Other resources with information on 3O35
  • Community annotation for 3O35 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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