6DF8 Dna Binding Protein Dna date May 14, 2018
title Kaiso (Zbtb33) Zinc Finger Dna Binding Domain In Complex Wit Specific Kaiso Binding Sequence (Kbs), Ph 6.5
authors E.N.Nikolova, R.L.Stanfield, H.J.Dyson, P.E.Wright
compound source
Molecule: Transcriptional Regulator Kaiso
Chain: A
Fragment: Residues 471-604
Synonym: Zinc Finger And Btb Domain-Containing Protein 33
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Zbtb33, Kaiso, Znf348
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3) [Dnay]
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21d

Molecule: Dna (5'- D(Tpgpcptptpcpcptpgpcpcpapaptpapapcpg)-3'
Chain: D
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606

Molecule: Dna (5'- D(Cpgptptpaptptpgpgpcpapgpgpapapgpcpa)-3'
Chain: E
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
symmetry Space Group: C 2 2 2
R_factor 0.179 R_Free 0.222
crystal
cell
length a length b length c angle alpha angle beta angle gamma
44.371 184.267 104.938 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.54 Å
ligand CL, ZN enzyme
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (6df8.pdb1.gz) 75 Kb
  • LPC: Ligand-Protein Contacts for 6DF8
  • CSU: Contacts of Structural Units for 6DF8
  • Structure Factors (208 Kb)
  • Retrieve 6DF8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6DF8 from S2C, [Save to disk]
    • View 6DF8 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 6DF8
  • 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: [6df8_A] [6df8_E] [6df8_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6DF8
  • Community annotation for 6DF8 at PDBWiki (http://pdbwiki.org)

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