5KE9 Transcription Factor Dna date Jun 09, 2016
title Mouse Klf4 E446p Znf1-3 And Tpgcpa Sequence Dna Complex Str
authors H.Hashimoto, X.Cheng
compound source
Molecule: Krueppel-Like Factor 4
Chain: A
Fragment: Unp Residues 396-483
Synonym: Epithelial Zinc Finger Protein Ezf,Gut-Enriched Kr Like Factor;
Engineered: Yes
Mutation: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Klf4, Ezf, Gklf, Zie
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3) Codon Plus
Expression_system_vector_type: Pgex-6p-1
Expression_system_plasmid: Pxc1328

Molecule: Dna (5'-D(Gpapgpgptpgptpgpgpc)-3')
Chain: B
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Gpcpcpapcpapcpcptpc)-3')
Chain: C
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 43 21 2
R_factor 0.214 R_Free 0.272
crystal
cell
length a length b length c angle alpha angle beta angle gamma
51.440 51.440 130.594 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.34 Å
ligand ZN enzyme
Primary referenceDistinctive Klf4 mutants determine preference for DNA methylation status., Hashimoto H, Wang D, Steves AN, Jin P, Blumenthal RM, Zhang X, Cheng X, Nucleic Acids Res. 2016 Sep 4. pii: gkw774. PMID:27596594
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (5ke9.pdb1.gz) 67 Kb
  • LPC: Ligand-Protein Contacts for 5KE9
  • CSU: Contacts of Structural Units for 5KE9
  • Structure Factors (125 Kb)
  • Retrieve 5KE9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5KE9 from S2C, [Save to disk]
  • Re-refined 5ke9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5KE9 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 5KE9
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5ke9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5ke9_A] [5ke9_C] [5ke9_B] [5ke9]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5KE9: [ZnF_C2H2 ] by SMART
  • Other resources with information on 5KE9
  • Community annotation for 5KE9 at PDBWiki (http://pdbwiki.org)

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