1PUE

PU.1 ETS DOMAIN-DNA COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.225 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

A new pattern for helix-turn-helix recognition revealed by the PU.1 ETS-domain-DNA complex.

Kodandapani, R.Pio, F.Ni, C.Z.Piccialli, G.Klemsz, M.McKercher, S.Maki, R.A.Ely, K.R.

(1996) Nature 380: 456-460

  • DOI: 10.1038/380456a0

  • PubMed Abstract: 
  • The Ets family of transcription factors, of which there are now about 35 members regulate gene expression during growth and development. They share a conserved domain of around 85 amino acids which binds as a monomer to the DNA sequence 5'-C/AGGAA/T- ...

    The Ets family of transcription factors, of which there are now about 35 members regulate gene expression during growth and development. They share a conserved domain of around 85 amino acids which binds as a monomer to the DNA sequence 5'-C/AGGAA/T-3'. We have determined the crystal structure of an ETS domain complexed with DNA, at 2.3-A resolution. The domain is similar to alpha + beta (winged) 'helix-turn-helix' proteins and interacts with a ten-base-pair region of duplex DNA which takes up a uniform curve of 8 degrees. The domain contacts the DNA by a novel loop-helix-loop architecture. Four of amino acids that directly interact with the DNA are highly conserved: two arginines from the recognition helix lying in the major groove, one lysine from the 'wing' that binds upstream of the core GGAA sequence, and another lysine, from the 'turn' of the 'helix-turn-helix' motif, which binds downstream and on the opposite strand.


    Related Citations: 
    • New Insights on DNA Recognition by ETS Proteins from the Crystal Structure of the PU.1 ETS Domain-DNA Complex
      Pio, F.,Kodandapani, R.,Ni, C.Z.,Shepard, W.,Klemsz, M.,McKercher, S.R.,Maki, R.A.,Ely, K.R.
      (1996) J.Biol.Chem. 271: 23329


    Organizational Affiliation

    La Jolla Cancer Research Center at the Burnham Institute, California 92037, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
PROTEIN (TRANSCRIPTION FACTOR PU.1 (TF PU.1))
E, F
89Mus musculusGene Names: Spi1 (Sfpi-1, Sfpi1)
Find proteins for P17433 (Mus musculus)
Go to UniProtKB:  P17433
Entity ID: 1
MoleculeChainsLengthOrganism
DNA (5'-D(*AP*AP*AP*AP*AP*GP*GP*GP*GP*AP*AP*GP*TP*GP*GP*G)-3')A,C16synthetic construct
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(*TP*CP*CP*CP*AP*CP*TP*TP*CP*CP*CP*CP*TP*TP*TP*T)-3')B,D16synthetic construct
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.225 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 89.100α = 90.00
b = 101.900β = 111.20
c = 55.600γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1997-02-12
    Type: Initial release
  • Version 1.1: 2008-05-22
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-02-15
    Type: Source and taxonomy, Structure summary