3WTY Transcription Dna date Apr 21, 2014
title Crystal Structure Of The Complex Comprised Of Ets1(G333p), R Cbfbeta, And The Tcralpha Gene Enhancer Dna
authors M.Shiina, K.Hamada, K.Ogata
compound source
Molecule: Runt-Related Transcription Factor 1
Chain: A, F
Fragment: Unp Residues 60-263
Synonym: Acute Myeloid Leukemia 1 Protein, Core-Binding Fac Subunit Alpha-2, Cbf-Alpha-2, Oncogene Aml-1, Polyomavirus Binding Protein 2 Alpha B Subunit, Pea2-Alpha B, Pebp2-Alph Enhancer Factor 1 Alpha B Subunit, Sl3akv Core-Binding Fac B Subunit;
Engineered: Yes
Mutation: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Aml1, Cbfa2, Pebp2ab, Runx1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet23a

Molecule: Core-Binding Factor Subunit Beta
Chain: B, G
Fragment: Unp Residues 1-142
Synonym: Cbf-Beta, Polyomavirus Enhancer-Binding Protein 2 Subunit, Pea2-Beta, Pebp2-Beta, Sl3-3 Enhancer Factor 1 Sub Sl3akv Core-Binding Factor Beta Subunit;
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Cbfb, Pebp2b, Pebpb2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet23a

Molecule: Protein C-Ets-1
Chain: C, H
Fragment: Unp Residues 276-441
Synonym: P54
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ets1, Ewsr2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet23a

Molecule: Dna (5'-D(Gpapapgpcpcpapcpaptpcpcptp 3');
Chain: D, I
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'-D(Apgpapgpgpaptpgptpgpgpcptp 3');
Chain: E, J
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.227 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
78.799 102.504 194.766 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å
Gene
Ontology
ChainFunctionProcessComponent
F, A


G, B


H, C


Primary referenceA novel allosteric mechanism on protein-DNA interactions underlying the phosphorylation-dependent regulation of Ets1 target gene expressions., Shiina M, Hamada K, Inoue-Bungo T, Shimamura M, Uchiyama A, Baba S, Sato K, Yamamoto M, Ogata K, J Mol Biol. 2014 Jul 29. pii: S0022-2836(14)00368-4. doi:, 10.1016/j.jmb.2014.07.020. PMID:25083921
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (147 Kb) [Save to disk]
  • Biological Unit Coordinates (3wty.pdb1.gz) 73 Kb
  • Biological Unit Coordinates (3wty.pdb2.gz) 70 Kb
  • CSU: Contacts of Structural Units for 3WTY
  • Structure Factors (371 Kb)
  • Retrieve 3WTY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3WTY from S2C, [Save to disk]
  • Re-refined 3wty structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3WTY 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 3WTY
  • 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
  • 3D motif for 3WTY, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3wty_H] [3wty] [3wty_D] [3wty_J] [3wty_B] [3wty_E] [3wty_I] [3wty_F] [3wty_A] [3wty_C] [3wty_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3WTY: [ETS ] by SMART
  • Other resources with information on 3WTY
  • Community annotation for 3WTY at PDBWiki (http://pdbwiki.org)

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