Hi, we just updated the motifs, transcription factors and sites in the database footprintDB.
The January 2025 version adds:
1) Motifs inferred from protein-DNA complexes at the Protein Data Bank, added to 3d-footprint by 19/12/2024; note the complexes are also used to annotate interface residues of all transcription factors (TFs).
2) New plant data at EEADannot, with TFs assigned to Plant-TFClass families (see repo).
The current contents include:
| total | unique | metazoa | plants | |
|---|---|---|---|---|
| Transcription Factors | 9976 | 7322 | 4839 | 1256 |
| DNA motifs (PSSM) | 17117 | 14828 | 8893 | 2962 |
| DNA Binding Sites/Sequences | 68358 |
The footprintDB motifs have also been synced with RSAT (see repo), see you soon,
Bruno
