6E94 Dna Binding Protein Dna date Jul 31, 2018
title Crystal Structure Of Zbtb38 C-Terminal Zinc Fingers 6-9 K105 Complex With Methylated Dna
authors N.O.Hudson, F.G.Whitby, B.A.Buck-Koehntop
compound source
Molecule: Zinc Finger And Btb Domain-Containing Protein 38
Chain: A
Engineered: Yes
Mutation: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Zbtb38
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21-Codonplus(De3)-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-21d

Molecule: Dna (5'-D(Gptpcptpgp(Dcm)Pgpcp(Dcm) Pgpaptpgpapgptpgpc)-3');
Chain: C
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Dna (5'-D(Gpcpapcptpcpaptp(Dcm)Pgpgp( Pgpcpapgpapc)-3');
Chain: D
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: C 2 2 21
R_factor 0.194 R_Free 0.218
crystal
cell
length a length b length c angle alpha angle beta angle gamma
70.804 77.270 103.756 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.59 Å
ligand 5CM, ZN enzyme
Primary referenceStructural insights into methylated DNA recognition by the C-terminal zinc fingers of the DNA reader protein ZBTB38., Hudson NO, Whitby FG, Buck-Koehntop BA, J Biol Chem. 2018 Oct 24. pii: RA118.005147. doi: 10.1074/jbc.RA118.005147. PMID:30355731
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (6e94.pdb1.gz) 75 Kb
  • LPC: Ligand-Protein Contacts for 6E94
  • CSU: Contacts of Structural Units for 6E94
  • Structure Factors (1055 Kb)
  • Retrieve 6E94 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6E94 from S2C, [Save to disk]
    • View 6E94 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 6E94
  • 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: [6e94_C] [6e94_D] [6e94_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6E94
  • Community annotation for 6E94 at PDBWiki (http://pdbwiki.org)

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science