ProtComp - Version 3.1: Program for Identification of sub-cellular localization
of Eukaryotic proteins: Animal/Fungi - Plants
NEW ProtComp is available for public usage at: http://www.softberry.com/http://www.softberry.com/protein.html
ProtComp: Current, fifth release of ProtComp developed using
COMBINATION of database analysis of similar proteins and NEURAL NET
recognizers separately trained for Animal/Fungi and Plant proteins.
This separation is improving the recognition accuracy, which is
for major compartments achives 90% level.
In this release we add predicted position of
SIGNAL peptides and TRANSMEMBRANE regions
The program initially searches our database of proteins
with known sub-cellular location and defines the location the same as
for protein having significant similarity. If such similarity is
absent we use 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 Similar protein, different networks and the final
Conclusion:
protcompan Thu Apr 5 01:12:03 EDT 2001
ProtComp Version 3.1. Identifying sub-cellular location (Animals&Fungi)
Seq name: sodium/hydrogen exchanger mononuclear cells of leukemia patients
Significant similarity by DBSCAN-P - Location:Plasma membrane S=42070
******** Signal 1-36 is found
******** Transmembrane segments are found: 128-142 160-172 190-217 286-312 390-404
411-440
Predicted by Neural Nets - Plasma membrane with score 7.5
Integral Prediction of protein location: Plasma membrane with score 16.0
Location weights: DBSCAN-P / Neural Nets / Integral
Nuclear 1266.0 / 0.72 / 0.97
Plasma membrane 42070.0 / 7.55 / 15.96
Extracellular 620.0 / 0.92 / 1.05
Cytoplasmic 522.0 / 0.72 / 0.83
Mitochondrial 4740.0 / 0.71 / 1.66
Endoplasm. retic. 540.0 / 1.47 / 1.57
Peroxisomal 0.0 / 0.45 / 0.45
Lysosomal 0.0 / 0.45 / 0.45
Golgi 0.0 / 0.54 / 0.54
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