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Integrates several open access repositories of curated cis-elements, DNA motifs, and TFs into a unique repository. footprintDB systematically annotates the binding interfaces of the TFs by exploiting protein–DNA complexes deposited in the Protein Data Bank. Each entry in footprintDB is thus a DNA motif linked to the protein sequence of the TF(s) known to recognize it, and in most cases, the set of predicted interface residues involved in specific recognition.

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3 user reviews

3 user reviews

Thomas's avatar image

Thomas

Very useful database, great free alternative to TRANSFAC

Carlos's avatar image

Carlos

nice database, basic for work with transcription factors

Irma's avatar image

Irma

It´s a very useful database and easy to use

footprintDB forum

No open topic.

footprintDB classification

  • Animals
  • Fungi
  • Plants
  • Protists

footprintDB specifications

Restrictions to use:
None
Data access:
Web user interface
Community driven:
No
User data submission:
Not allowed

footprintDB support

Documentation

Credits

Publications

  • (Contreras-Moreira and Sebastian, 2016) FootprintDB: Analysis of Plant Cis-Regulatory Elements, Transcription Factors, and Binding Interfaces. Methods in Molecular Biology.
    Published on: 2016 Jan 01
    PMID: 27557773

Institution(s)

Laboratory of Computational Biology, Department of Genetics and Plant Production, Estación Experimental de Aula Dei/CSIC, Zaragoza, Spain; Fundación ARAID, Zaragoza, Spain
This work was funded by grant Euroinvestigacion EUI2008-03612 under the framework of the Transnational (Germany, France, Spain) Cooperation within the PLANT-KBBE Initiative.

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