Table 2. Nuclear signals and proteins in entire proteomes.
| Organism | Number of proteins | Proteins with NLS | Proteins with NES | LocTree3 (nucleus) |
|---|---|---|---|---|
| Homo sapiens (human) | 21 042 | 2673 (12.7%) | 375 (1.8%) | 30% |
| Schizosaccharomyces pombe (fission yeast) | 5142 | 501 (9.7%) | 78 (1.5%) | 34% |
| Arabidopsis thaliana (thale cress) | 27 502 | 2768 (10.1%) | 246 (0.9%) | 31% |
| Mus musculus (mouse) | 22 262 | 2684 (12.1%) | 358 (1.6%) | 30% |
| Saccharomyces cerevisiae (brewer's yeast) | 6722 | 681 (10.1%) | 63 (0.9%) | 31% |
| Drosophila melanogaster (fruit fly) | 13 757 | 1573 (11.4%) | 168 (1.2%) | 31% |
| Caenorhabditis elegans (roundworm) | 20 057 | 1759 (8.8%) | 170 (0.8%) | 27% |
| Rattus norvegicus (rat) | 21 412 | 2555 (11.9%) | 359 (1.7%) | 28% |
| Oryza sativa (rice) | 44 321 | 4285 (9.7%) | 280 (0.6%) | 28% |
Organism: latin (common) names for the nine organisms that contributed the most nuclear proteins to NLSdb (sorted by number of nuclear proteins); Number of proteins: gives the number of proteins found in the ‘entire proteome’ as we accessed it (Methods: Dataset of whole proteomes); Proteins with NLS/NES: numbers and fractions (brackets) of the nuclear proteins that contain at least one NLS or NES from NLSdb; LocTree3 (nucleus): lists the fractions of proteins predicted by our generic machine learning-based method LocTree3 (22) as nuclear.