Table 4 LocateP-predicted average distribution (%/(STDEV)) of proteins over different SCLs for Gram-positive bacteria
From: LocateP: Genome-scale subcellular-location predictor for bacterial proteins
Class/order level | ||||||||
|---|---|---|---|---|---|---|---|---|
Species | Actinobacteria | Bacillales | Clostridia | Lactobacillales | Mollicutes | Â | Â | Â |
Average genome size | 4098 | 3573 | 2969 | 2048 | 724 | Â | Â | Â |
Grouped according to LocateP classification | ||||||||
N-anchored (Membrane) | 5.0/(1.1) | 5.7/(0.6) | 6.8/(1.0) | 5.8/(0.7) | 8.7/(3.1) | Â | Â | Â |
C-anchored (Membrane) | 0.3/(0.2) | 0.1/(0.1) | 0.2/(0.1) | 0.2/(0.1) | 0.3/(0.3) | Â | Â | Â |
Multi-transmembrane (Membrane) | 16.5/(2.6) | 20.3/(1.4) | 16.9/(2.8) | 17.9/(2.1) | 17.1/(2.3) | Â | Â | Â |
Intracellular (Cytoplasmic) | 74.3/(2.8) | 69.8/(2.2) | 73.2/(3.6) | 72.9/(2.0) | 71.4/(3.8) | Â | Â | Â |
Lipid anchored (Extracellular) | 2.2/(0.5) | 2.3/(0.4) | 1.6/(0.6) | 1.6/(0.5) | 1.9/(1.6) | Â | Â | Â |
Secreted (Extracellular) | 3.0/(0.9) | 2.1/(0.5) | 2.1/(0.5) | 1.8/(0.6) | 2.3/(1.3) | Â | Â | Â |
Secreted via minor pathways (Extracellular) | 0.1/(0.1) | 0.1/(0.1) | 0.1/(0.1) | 0.28/(0.2) | 0.04/(0.1) | Â | Â | Â |
LPxTG Cell-wall anchored (Cell wall) | 0.1/(0.2) | 0.4/(0.4) | 0.1/(0.2) | 0.6/(0.4) | 0.03/(0.1) | Â | Â | Â |
Grouped according to Swiss-Prot classification | ||||||||
Membrane | 21.4/(2.7) | 26.2/(1.7) | 23.8/(3.4) | 23.8/(1.9) | 26.1/(3.9) | Â | Â | Â |
Cytoplasmic | 74.3/(2.8) | 69.8/(2.2) | 73.2/(3.6) | 72.9/(2.0) | 71.4/(3.7) | Â | Â | Â |
Extracellular | 5.4/(1.1) | 4.5/(0.7) | 3.8/(0.8) | 3.7/(0.8) | 4.2/(1.9) | Â | Â | Â |
Cell wall | 0.1/(0.2) | 0.4/(0.4) | 0.1/(0.2) | 0.6/(0.4) | 0.03/(0.1) | Â | Â | Â |
Species level | ||||||||
Organism | Spn | Lla | Sau | Lmo | Lpl | Cac | Bsu | STDEV |
Total proteins | 2105 | 2321 | 2656 | 2846 | 3009 | 3672 | 4105 | Â |
Grouped according to LocateP classification (%) | ||||||||
N-anchored (Membrane) | 4.5 | 5.9 | 6.0 | 4.9 | 5.2 | 6.9 | 6.2 | 0.8 |
C-anchored (Membrane) | 0.1 | 0.1 | 0.1 | 0.4 | 0.2 | 0.2 | 0.1 | 0.1 |
Multi-transmembrane (Membrane) | 17.9 | 18.4 | 19.5 | 19.1 | 20.5 | 18.1 | 20.7 | 1.1 |
Intracellular (Cytoplasmic) | 74.7 | 72.8 | 70.5 | 71.1 | 70.2 | 71.3 | 69.1 | 1.9 |
Lipid anchored (Extracellular) | 1.7 | 1.4 | 2.2 | 2.0 | 1.6 | 1.7 | 2.0 | 0.3 |
Secreted (Extracellular) | 1.2 | 1.9 | 2.1 | 1.7 | 1.9 | 2.3 | 2.6 | 0.4 |
Secreted via minor pathways (Extracellular) | 0.5 | 0.0 | 0.1 | 0.2 | 0.3 | 0.1 | 0.2 | 0.2 |
LPxTG cell-wall anchored (Cell wall) | 0.5 | 0.5 | 0.5 | 1.5 | 1.1 | 0.1 | 0.1 | 0.5 |
Grouped according to Swiss-Prot classification (%) | ||||||||
Membrane | 22.4 | 24.4 | 25.5 | 24.4 | 25.9 | 25.2 | 27.0 | 1.4 |
Cytoplasmic | 74.7 | 72.8 | 70.5 | 71.1 | 70.2 | 71.3 | 69.1 | 1.9 |
Extracellular | 3.4 | 3.3 | 4.4 | 4.0 | 3.8 | 4.1 | 4.8 | 0.5 |
Cell wall | 0.5 | 0.5 | 0.5 | 1.5 | 1.1 | 0.1 | 0.1 | 0.5 |