1A1F

DSNR (ZIF268 VARIANT) ZINC FINGER-DNA COMPLEX (GACC SITE)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.270 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.225 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

High-resolution structures of variant Zif268-DNA complexes: implications for understanding zinc finger-DNA recognition.

Elrod-Erickson, M.Benson, T.E.Pabo, C.O.

(1998) Structure 6: 451-464

  • DOI: 10.1016/s0969-2126(98)00047-1
  • Primary Citation of Related Structures:  
    1A1H, 1A1G, 1A1F, 1A1L, 1A1K, 1A1J, 1A1I

  • PubMed Abstract: 
  • Zinc fingers of the Cys2-His2 class comprise one of the largest families of eukaryotic DNA-binding motifs and recognize a diverse set of DNA sequences. These proteins have a relatively simple modular structure and key base contacts are typically made by ...

    Zinc fingers of the Cys2-His2 class comprise one of the largest families of eukaryotic DNA-binding motifs and recognize a diverse set of DNA sequences. These proteins have a relatively simple modular structure and key base contacts are typically made by a few residues from each finger. These features make the zinc finger motif an attractive system for designing novel DNA-binding proteins and for exploring fundamental principles of protein-DNA recognition.


    Related Citations: 
    • Zif268 Protein-DNA Complex Refined at 1.6 A: A Model System for Understanding Zinc Finger-DNA Interactions
      Elrod-Erickson, M., Rould, M.A., Nekludova, L., Pabo, C.O.
      (1996) Structure 4: 1171
    • Zinc Finger Phage: Affinity Selection of Fingers with New DNA-Binding Specificities
      Rebar, E.J., Pabo, C.O.
      (1994) Science 263: 671
    • Zinc Finger-DNA Recognition: Crystal Structure of a Zif268-DNA Complex at 2.1 A
      Pavletich, N.P., Pabo, C.O.
      (1991) Science 252: 809

    Organizational Affiliation

    Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
THREE-FINGER ZIF268 PEPTIDE A90Mus musculusMutation(s): 3 
Gene Names: Egr1Egr-1Krox-24
Find proteins for P08046 (Mus musculus)
Explore P08046 
Go to UniProtKB:  P08046
NIH Common Fund Data Resources
IMPC:  MGI:95295
Protein Feature View
Expand
  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*AP*GP*CP*GP*TP*GP*GP*GP*AP*CP*C)-3')B11N/A
    • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 2
      MoleculeChainsLengthOrganismImage
      DNA (5'-D(*TP*GP*GP*TP*CP*CP*CP*AP*CP*GP*C)-3')C11N/A
      Small Molecules
      Ligands 1 Unique
      IDChainsName / Formula / InChI Key2D Diagram3D Interactions
      ZN
      Query on ZN

      Download Ideal Coordinates CCD File 
      A
      ZINC ION
      Zn
      PTFCDOFLOPIGGS-UHFFFAOYSA-N
       Ligand Interaction
      Experimental Data & Validation

      Experimental Data

      • Method: X-RAY DIFFRACTION
      • Resolution: 2.10 Å
      • R-Value Free: 0.270 
      • R-Value Work: 0.225 
      • R-Value Observed: 0.225 
      • Space Group: C 2 2 21
      Unit Cell:
      Length ( Å )Angle ( ˚ )
      a = 43α = 90
      b = 55.9β = 90
      c = 128.4γ = 90
      Software Package:
      Software NamePurpose
      X-PLORmodel building
      X-PLORrefinement
      DENZOdata reduction
      SCALEPACKdata scaling
      X-PLORphasing

      Structure Validation

      View Full Validation Report



      Entry History 

      Deposition Data

      Revision History 

      • Version 1.0: 1998-06-10
        Type: Initial release
      • Version 1.1: 2008-05-22
        Changes: Version format compliance
      • Version 1.2: 2011-07-13
        Changes: Version format compliance