6BQD Gene Regulation date Nov 27, 2017
title Taf1-Bd2 Bromodomain In Complex With (E)-3-(6-(But-2-En-1-Yl 7-Dihydro-1h-Pyrrolo[2,3-C]Pyridin-4-Yl)-N,N-Dimethylbenzam
authors J.M.Murray, Y.Tang
compound source
Molecule: Transcription Initiation Factor Tfiid Subunit 1
Chain: A, B
Fragment: Taf1-Bd2 Bromodomain
Synonym: Cell Cycle Gene 1 Protein,Tbp-Associated Factor 25 P250,Transcription Initiation Factor Tfiid 250 Kda Subunit,
Ec: 2.3.1.48,2.7.11.1
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Taf1, Ba2r, Ccg1, Ccgs, Taf2a
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.185 R_Free 0.226
crystal
cell
length a length b length c angle alpha angle beta angle gamma
128.553 42.510 63.372 90.00 103.39 90.00
method X-Ray Diffractionresolution 2.14 Å
ligand 69G enzyme Transferase E.C.2.3.1.48 BRENDA
Primary referenceWater molecules in protein-ligand interfaces. Evaluation of software tools and SAR comparison., Nittinger E, Gibbons P, Eigenbrot C, Davies DR, Maurer B, Yu CL, Kiefer JR, Kuglstatter A, Murray J, Ortwine DF, Tang Y, Tsui V, J Comput Aided Mol Des. 2019 Feb 12. pii: 10.1007/s10822-019-00187-y. doi:, 10.1007/s10822-019-00187-y. PMID:30756207
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (95 Kb) [Save to disk]
  • Biological Unit Coordinates (6bqd.pdb1.gz) 46 Kb
  • Biological Unit Coordinates (6bqd.pdb2.gz) 46 Kb
  • LPC: Ligand-Protein Contacts for 6BQD
  • CSU: Contacts of Structural Units for 6BQD
  • Structure Factors (392 Kb)
  • Retrieve 6BQD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6BQD from S2C, [Save to disk]
    • View 6BQD 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 6BQD
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6bqd_B] [6bqd_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6BQD
  • Community annotation for 6BQD at PDBWiki (http://pdbwiki.org)

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