5KEA Transcription Factor Dna date Jun 09, 2016
title Mouse Klf4 Znf1-3 (E446d) And Cpgcpg Sequence Dna Complex S Form I
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-11
Expression_system_plasmid: Pxc1411

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

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

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

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 43 21 2
R_factor 0.229 R_Free 0.283
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.850 50.850 131.050 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.46 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 (5kea.pdb1.gz) 66 Kb
  • LPC: Ligand-Protein Contacts for 5KEA
  • CSU: Contacts of Structural Units for 5KEA
  • Structure Factors (107 Kb)
  • Retrieve 5KEA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5KEA from S2C, [Save to disk]
  • Re-refined 5kea structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5KEA 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 5KEA
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5kea from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5kea_A] [5kea] [5kea_B] [5kea_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5KEA: [ZnF_C2H2 ] by SMART
  • Other resources with information on 5KEA
  • Community annotation for 5KEA at PDBWiki (http://pdbwiki.org)

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