5I29 Protein Binding Inhibitor date Feb 08, 2016
title Taf1(2) Bound To A Pyrrolopyridone Compound
authors Y.Tang, F.Poy, S.F.Bellon
compound source
Molecule: Transcription Initiation Factor Tfiid Subunit 1
Chain: A
Fragment: Second Bromodomain (Unp Residues 1497-1638)
Synonym: Cell Cycle Gene 1 Protein, Tbp-Associated Factor 2 P250, Transcription Initiation Factor Tfiid 250 Kda Subunit Tafii250;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Taf1, Ba2r, Ccg1, Ccgs, Taf2a
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Prsf
symmetry Space Group: P 21 21 21
R_factor 0.197 R_Free 0.217
crystal
cell
length a length b length c angle alpha angle beta angle gamma
47.397 59.471 59.866 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.21 Å
ligand 67B, CA enzyme
Primary referenceA Subset of Human Bromodomains Recognizes Butyryllysine and Crotonyllysine Histone Peptide Modifications., Flynn EM, Huang OW, Poy F, Oppikofer M, Bellon SF, Tang Y, Cochran AG, Structure. 2015 Sep 4. pii: S0969-2126(15)00329-9. doi:, 10.1016/j.str.2015.08.004. PMID:26365797
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (55 Kb) [Save to disk]
  • Biological Unit Coordinates (5i29.pdb1.gz) 50 Kb
  • LPC: Ligand-Protein Contacts for 5I29
  • CSU: Contacts of Structural Units for 5I29
  • Structure Factors (1094 Kb)
  • Retrieve 5I29 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5I29 from S2C, [Save to disk]
  • Re-refined 5i29 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5I29 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 5I29
  • 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: [5i29_A] [5i29]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5I29: [BROMO ] by SMART
  • Other resources with information on 5I29
  • Community annotation for 5I29 at PDBWiki (http://pdbwiki.org)

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