4UUS

CRYSTAL STRUCTURE OF A UBX-EXD-DNA COMPLEX INCLUDING THE UBDA MOTIF

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.187 
  • R-Value Observed: 0.190 

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Literature

A Flexible Extension of the Drosophila Ultrabithorax Homeodomain Defines a Novel Hox/Pbc Interaction Mode.

Foos, N., Maurel-Zaffran, C., Mate, M.J., Vincentelli, R., Hainaut, M., Berenger, H., Pradel, J., Saurin, A.J., Ortiz-Lombardia, M., Graba, Y.

(2015) Structure 23: 270

  • DOI: 10.1016/j.str.2014.12.011
  • Primary Citation of Related Structures:  
    4CYC, 4UUS, 4UUT

  • PubMed Abstract: 

    • The patterning function of Hox proteins relies on assembling protein complexes with PBC proteins, which often involves a protein motif found in most Hox proteins, the so-called Hexapeptide (HX). Hox/PBC complexes likely gained functional diversity by acquiring additional modes of interaction ...

    The patterning function of Hox proteins relies on assembling protein complexes with PBC proteins, which often involves a protein motif found in most Hox proteins, the so-called Hexapeptide (HX). Hox/PBC complexes likely gained functional diversity by acquiring additional modes of interaction. Here, we structurally characterize the first HX alternative interaction mode based on the paralogue-specific UbdA motif and further functionally validate structure-based predictions. The UbdA motif folds as a flexible extension of the homeodomain recognition helix and defines Hox/PBC contacts that occur, compared with those mediated by the HX motif, on the opposing side of the DNA double helix. This provides a new molecular facet to Hox/PBC complex assembly and suggests possible mechanisms for the diversification of Hox protein function.

    Organizational Affiliation: 

    Centre National de la Recherche Scientifique, Aix-Marseille Université, CNRS UMR 7288, IBDM, Parc Scientifique de Luminy, Case 907, 13288 Marseille Cedex 09, France. Electronic address: yacine.graba@univ-amu.fr.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
HOMEOTIC PROTEIN ULTRABITHORAXA, E77Drosophila melanogasterMutation(s): 1 
Gene Names: Ubx, CG10388
UniProt
Find proteins for P83949 (Drosophila melanogaster)
Explore P83949 
Go to UniProtKB:  P83949
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UniProt GroupP83949
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
HOMEOTIC PROTEIN EXTRADENTICLEB, F76Drosophila melanogasterMutation(s): 0 
Gene Names: exd, CG8933
UniProt
Find proteins for P40427 (Drosophila melanogaster)
Explore P40427 
Go to UniProtKB:  P40427
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UniProt GroupP40427
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  • Reference Sequence

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Entity ID: 3
MoleculeChainsLengthOrganismImage
5'-D(*GP*TP*CP*GP*CP*CP*AP*TP*AP*AP*AP*TP*CP*AP*C)-3'C, G15Drosophila melanogaster
Protein Feature View
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Entity ID: 4
MoleculeChainsLengthOrganismImage
5'-D(*AP*CP*GP*TP*GP*AP*TP*TP*TP*AP*TP*GP*GP*CP*G)-3'D, H15Drosophila melanogaster
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.187 
  • R-Value Observed: 0.190 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 42.67α = 90
b = 95.92β = 99.34
c = 69.82γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-02-18
    Type: Initial release