ProtComp - Version 4: Program for Identification of sub-cellular localization
of Eukaryotic proteins: Animal/Fungi - Plants
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New release of our program for predicting protein sub-cellular localization,
ProtComp http://www.softberry.com/protein.html
incorporates recognition of GPI-anchor sites and some other improvements.
The third release of ProtComp includes separately trained recognizers for
animal/fungal
and plant proteins. Such separation dramatically improves recognition accuracy,
which
for major compartments, such as plasma membrane, nuclear, extracellular,
achieves 70-90% level.
The program is based on complex neural-network recognizers, which identify
probability
of the subcellular localization in nucleus, plasma membrane, extracellular,
cytoplasmic,
mitochondrial, chloroplast, endoplasmic reticulum, peroxisomal, lysosomal or
Golgi compartments.
Example of Output results: Presents scores for different networks and the final
conclusion.
Output sample:
Protcomp Version 4. Identifying sub-cellular location (Animals&Fungi)
Seq name: P52307 552 580
Significant similarity in Location DB - Location:Plasma membrane S=9390,
LS=576 LA=450
Predicted by Neural Nets - Plasma membrane with score 2.3
******** Potential GPI-anchor in position 552 is found
Integral Prediction of protein location: Plasma membrane with score 4.3
Location weights: LocDB / PotLocDB / Neural Nets / Integral
Nuclear 0.0 / 0.0 / 0.73 / 0.73
Plasma membrane 9390.0 / 0.0 / 2.26 / 4.34
Extracellular 6200.0 / 0.0 / 1.95 / 3.33
Cytoplasmic 0.0 / 0.0 / 0.72 / 0.72
Mitochondrial 0.0 / 0.0 / 0.74 / 0.74
Endoplasm. retic. 0.0 / 0.0 / 0.62 / 0.62
Peroxisomal 0.0 / 0.0 / 1.14 / 1.14
Lysosomal 0.0 / 0.0 / 0.28 / 0.28
Golgi 0.0 / 0.0 / 0.28 / 0.28
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