6E8C Dna Binding Protein Dna date Jul 27, 2018
title Crystal Structure Of The Double Homeodomain Of Dux4 In Compl Dna
authors J.K.Lee, D.Bosnakovski, E.A.Toso, T.Dinh, S.Banerjee, T.E.Bohl, K. K.Kurahashi, M.Kyba, H.Aihara
compound source
Molecule: Double Homeobox Protein 4
Chain: A
Fragment: Homeobox 1 And 2, Residues 16-155
Synonym: Double Homeobox Protein 10
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dux4, Dux10
Expression_system: Escherichia Coli K-12
Expression_system_taxid: 83333

Molecule: Dna (5'- D(Gpcpgptpapaptpcptpapaptpcpapapcpa)-3');
Chain: B
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Dna (5'- D(Tpgptptpgpaptptpapgpaptptpapcpgpc)-3');
Chain: C
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: C 2 2 21
R_factor 0.198 R_Free 0.247
crystal
cell
length a length b length c angle alpha angle beta angle gamma
67.190 73.140 108.560 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.12 Å
ligand CME enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal Structure of the Double Homeodomain of DUX4 in Complex with DNA., Lee JK, Bosnakovski D, Toso EA, Dinh T, Banerjee S, Bohl TE, Shi K, Orellana K, Kyba M, Aihara H, Cell Rep. 2018 Dec 11;25(11):2955-2962.e3. doi: 10.1016/j.celrep.2018.11.060. PMID:30540931
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (114 Kb) [Save to disk]
  • Biological Unit Coordinates (6e8c.pdb1.gz) 106 Kb
  • LPC: Ligand-Protein Contacts for 6E8C
  • CSU: Contacts of Structural Units for 6E8C
  • Structure Factors (225 Kb)
  • Retrieve 6E8C in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6E8C from S2C, [Save to disk]
    • View 6E8C 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 6E8C
  • 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: [6e8c_A] [6e8c_C] [6e8c_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6E8C
  • Community annotation for 6E8C at PDBWiki (http://pdbwiki.org)

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