2WBS Transcription Dna date Mar 03, 2009
title Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound To Its Target Dna
authors G.Zocher, A.Schuetz, D.Carstanjen, U.Heinemann
compound source
Molecule: Krueppel-Like Factor 4
Chain: A
Fragment: Dna-Binding Domain, Residues 395-483
Synonym: Gut-Enriched Krueppel-Like Factor, Epithelial Zinc Protein Ezf;
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Strain: C57bl6
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: 5'-D(Gpapgpgpcpgpcp)-3'
Chain: F
Synonym: Heptameric Dna Binding Sequence Of Klf4

Synthetic: Yes
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090

Molecule: 5'-D(Gpcpgpcpcptpcp)-3'
Chain: G
Synonym: Heptameric Dna Binding Sequence Of Klf4

Synthetic: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
symmetry Space Group: P 21 21 21
R_factor 0.200 R_Free 0.232
crystal
cell
length a length b length c angle alpha angle beta angle gamma
41.000 45.970 73.910 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand GOL, ZN enzyme
Primary referenceThe structure of the Klf4 DNA-binding domain links to self-renewal and macrophage differentiation., Schuetz A, Nana D, Rose C, Zocher G, Milanovic M, Koenigsmann J, Blasig R, Heinemann U, Carstanjen D, Cell Mol Life Sci. 2011 Sep;68(18):3121-31. Epub 2011 Feb 3. PMID:21290164
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (30 Kb) [Save to disk]
  • Biological Unit Coordinates (2wbs.pdb1.gz) 24 Kb
  • LPC: Ligand-Protein Contacts for 2WBS
  • CSU: Contacts of Structural Units for 2WBS
  • Structure Factors (666 Kb)
  • Retrieve 2WBS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2WBS from S2C, [Save to disk]
  • Re-refined 2wbs structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2WBS 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 2WBS
  • 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
  • 3D motif for 2WBS, from MSDmotif at EBI
  • Fold representative 2wbs from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2wbs_F] [2wbs] [2wbs_A] [2wbs_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2WBS: [ZnF_C2H2 ] by SMART
  • Other resources with information on 2WBS
  • Community annotation for 2WBS at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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