Table 4 Classification of proteins containing TE-associated Pfam domains detected by the GA and TC cut-offs of HMMER. The categories of hits are described in the text and the number (percentage) for each category is shown for searches against the PDB and SwissProt data sets.
From: Evaluating the protein coding potential of exonized transposable element sequences
Category | PDB | Swiss-Prot |
|---|---|---|
Potential TE-related proteins | 11 (7.86%) | 3 (21.43%) |
Viral proteins | 14 (10.00%) | 0 (0%) |
TE-encoded proteins | 18 (12.86%) | 7 (50.00%) |
Synthetic construct | 47 (33.57%) | 0 (0%) |
non-specific TE-related protein domains | 50 (35.71%) | 4 (28.57%) |