1A1J

RADR (ZIF268 VARIANT) ZINC FINGER-DNA COMPLEX (GCGT SITE)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.210 

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

  • Primary Citation of Related Structures:  

  • 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 ...

    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: 
    • 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
    • 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


    Organizational Affiliation

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




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
PROTEIN (RADR ZIF268 ZINC FINGER PEPTIDE)
A
90Mus musculusMutation(s): 0 
Gene Names: Egr1 (Egr-1, Krox-24)
Find proteins for P08046 (Mus musculus)
Go to UniProtKB:  P08046
Entity ID: 1
MoleculeChainsLengthOrganism
DNA (5'-D(*AP*GP*CP*GP*TP*GP*GP*GP*CP*GP*T)-3')B11N/A
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(*TP*AP*CP*GP*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 SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.210 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 42.300α = 90.00
b = 55.900β = 90.00
c = 133.600γ = 90.00
Software Package:
Software NamePurpose
X-PLORmodel building
DENZOdata reduction
X-PLORrefinement
SCALEPACKdata scaling
X-PLORphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1998-06-17
    Type: Initial release
  • Version 1.1: 2008-05-22
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance