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Table 1 Usage of targeting signals in human and viral proteins

From: Predicting the subcellular localization of viral proteins within a mammalian host cell

Organism Human Cytomegalovirus (strain AD169) Vaccinia (Copenhagen strain)  
Protein count 28908 192 255  
Targeting signals Percentage of proteins containing signal Predictor
Signal peptide 22.0% 25.0% 12.9% SignalP [16]
Signal anchor 5.9% 8.8% 5.9% SignalP
Mitochondrial targeting peptide 8.5% 12.0% 7.1% Predotar [40]
0 TMDa 78.0% 66.1% 76.5% TMHMM [41]
1 TMDa 10.0% 19.8% 16.1% TMHMM
2 TMDsa 2.4% 5.7% 5.9% TMHMM
>2 TMDsa 9.7% 8.3% 0.8% TMHMM
GPI anchor 2.5–3.0%b 3.1% 2.4% GPI-SOM [42]
Prenyl group (PS00294) 0.8% 0.5% 0% Prosite [43]
NLS 13.3%c 8.3% 2.0% PredictNLS [44]
KDEL-like (PS00014) 0.2% 0% 0% Prosite
Peroxisomal targeting (PS00342) 2.2% 1.6% 2.8% Prosite
Most prevalent eukaryotic functional domains Percentage of proteins containing domain Predictor
Immunoglobulin-like (IPR007110) 2.7% 5.7% 2.0% InterPro [28]
Galactose oxidase (IPR011043) 0.3% 0% 1.6% InterPro
Proteinase inhibititor I4, serpin (IPR000215) 0.2% 0% 1.6% InterPro
Rhodopsin-like GPCR superfamily (IPR000276) 2.8% 2.1% 0% InterPro
  1. a TMD: transmembrane domain
  2. bestimation for proportion of human proteins containing a GPI anchor from [42]
  3. cestimation for proportion of human proteins containing an NLS (nuclear localization signal) from [44].