6DFC Dna Binding Protein Dna date May 14, 2018
title Kaiso (Zbtb33) Zinc Finger Dna Binding Domain In Complex Wit Specific Kaiso Binding Sequence (Kbs) With A T-To-U Substit
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(Tpgpcptptpcpuptpgpcpcpapaptpapapcpg)-3'
Chain: D
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606

Molecule: Dna (5'- D(Cpgptptpaptptpgpgpcpapapgpapapgpcpa)-3'
Chain: E
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
symmetry Space Group: C 2 2 2
R_factor 0.187 R_Free 0.208
crystal
cell
length a length b length c angle alpha angle beta angle gamma
44.240 184.451 104.705 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand CL, ZN enzyme
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (84 Kb) [Save to disk]
  • Biological Unit Coordinates (6dfc.pdb1.gz) 77 Kb
  • LPC: Ligand-Protein Contacts for 6DFC
  • CSU: Contacts of Structural Units for 6DFC
  • Structure Factors (510 Kb)
  • Retrieve 6DFC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6DFC from S2C, [Save to disk]
    • View 6DFC 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 6DFC
  • 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: [6dfc_A] [6dfc_E] [6dfc_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6DFC
  • Community annotation for 6DFC at PDBWiki (http://pdbwiki.org)

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