1XPX

Structural basis of prospero-DNA interaction; implications for transcription regulation in developing cells


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.217 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural Basis of Prospero-DNA Interaction: Implications for Transcription Regulationin Developing Cells.

Yousef, M.S.Matthews, B.W.

(2005) STRUCTURE 13: 601-607

  • DOI: 10.1016/j.str.2005.01.023

  • PubMed Abstract: 
  • The crystal structure of a complex between the novel homeodomain of the neural transcription factor Prospero and DNA shows that the invariant residues Lys1290, Asn1294, and Asp1297 make specific contacts with the noncanonical DNA binding site. The ov ...

    The crystal structure of a complex between the novel homeodomain of the neural transcription factor Prospero and DNA shows that the invariant residues Lys1290, Asn1294, and Asp1297 make specific contacts with the noncanonical DNA binding site. The overall structure includes the homeodomain and the adjacent Prospero domain and confirms that they act as a single structural unit, a Homeo-Prospero domain. The Prospero domain facilitates the proper alignment of the protein on the DNA. Knowledge of the structure reconciles two different DNA sequences that have been proposed as transcriptional targets for Prospero. As in the apo structure, the C terminus of the Prospero domain shields a short helix within the homeodomain that includes a nuclear export signal (NES). The structural results suggest that exposure of the NES is not coupled directly to DNA binding. We propose a DNA recognition mechanism specific to Prospero-type homeodomains in developing cells.


    Related Citations: 
    • Structure of the DNA binding region of prospero reveals a novel homeo-prospero domain.
      Ryter, J.M.,Doe, C.Q.,Matthews, B.W.
      (2002) Structure 10: 1541


    Organizational Affiliation

    Institute of Molecular Biology, Howard Hughes Medical Institute, Department of Physics, University of Oregon, Eugene, Oregon 97403, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Protein prospero
A
163Drosophila melanogasterMutation(s): 0 
Gene Names: pros
Find proteins for P29617 (Drosophila melanogaster)
Go to UniProtKB:  P29617
Entity ID: 1
MoleculeChainsLengthOrganism
5'-D(*AP*GP*CP*AP*TP*GP*CP*CP*TP*G)-3'D10N/A
Entity ID: 2
MoleculeChainsLengthOrganism
5'-D(*CP*AP*GP*GP*CP*AP*TP*GP*CP*T)-3'C10N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.217 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 44.708α = 90.00
b = 44.708β = 90.00
c = 226.661γ = 90.00
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-05-03
    Type: Initial release
  • Version 1.1: 2008-04-30
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance