Structure of mutS139F p73 DNA binding domain complexed with 20BP DNA response element

Experimental Data Snapshot

  • Resolution: 3.70 Å
  • R-Value Free: 0.316 
  • R-Value Work: 0.302 
  • R-Value Observed: 0.303 

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Transactivation specificity is conserved among p53 family proteins and depends on a response element sequence code.

Ciribilli, Y.Monti, P.Bisio, A.Nguyen, H.T.Ethayathulla, A.S.Ramos, A.Foggetti, G.Menichini, P.Menendez, D.Resnick, M.A.Viadiu, H.Fronza, G.Inga, A.

(2013) Nucleic Acids Res 41: 8637-8653

  • DOI: https://doi.org/10.1093/nar/gkt657
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Structural and biochemical studies have demonstrated that p73, p63 and p53 recognize DNA with identical amino acids and similar binding affinity. Here, measuring transactivation activity for a large number of response elements (REs) in yeast and human cell lines, we show that p53 family proteins also have overlapping transactivation profiles. We identified mutations at conserved amino acids of loops L1 and L3 in the DNA-binding domain that tune the transactivation potential nearly equally in p73, p63 and p53. For example, the mutant S139F in p73 has higher transactivation potential towards selected REs, enhanced DNA-binding cooperativity in vitro and a flexible loop L1 as seen in the crystal structure of the protein-DNA complex. By studying, how variations in the RE sequence affect transactivation specificity, we discovered a RE-transactivation code that predicts enhanced transactivation; this correlation is stronger for promoters of genes associated with apoptosis.

  • Organizational Affiliation

    Laboratory of Transcriptional Networks, Centre for Integrative Biology (CIBIO), University of Trento, TN, 38060 Italy, Molecular Mutagenesis and DNA Repair Unit, IRCSS Azienda Ospedaliera Universitaria San Martino-IST-Istituto Nazionale per la Ricerca sul Cancro, Genoa 16132, Italy, Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, CA, 92093, USA and Chromosome Stability Group, Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, NIEHS, NIH, RTP, NC, 27709, USA.


Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Tumor protein p73C [auth A],
D [auth B]
210Homo sapiensMutation(s): 1 
Gene Names: human p73P73TP73
UniProt & NIH Common Fund Data Resources
Find proteins for O15350 (Homo sapiens)
Explore O15350 
Go to UniProtKB:  O15350
PHAROS:  O15350
GTEx:  ENSG00000078900 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO15350
Sequence Annotations
  • Reference Sequence

Find similar nucleic acids by:  Sequence   |   3D Structure  

Entity ID: 1
MoleculeChains LengthOrganismImage
DNA (5'-D(P*GP*AP*AP*CP*AP*TP*GP*TP*TP*C)-3')A [auth E],
B [auth F]
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 3.70 Å
  • R-Value Free: 0.316 
  • R-Value Work: 0.302 
  • R-Value Observed: 0.303 
  • Space Group: P 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 172.498α = 90
b = 172.498β = 90
c = 34.093γ = 120
Software Package:
Software NamePurpose
HKL-2000data collection
HKL-2000data reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-08-14
    Type: Initial release
  • Version 1.1: 2013-10-23
    Changes: Database references
  • Version 1.2: 2023-09-13
    Changes: Data collection, Database references, Derived calculations, Refinement description