Abstract
Discrimination of Lysosomal membrane proteins (LMP’s) from folding types of globular (GPs) and other membrane proteins (OtMPs) is an important task both for identifying LMPs from genomic sequences and for the successful prediction of their secondary and tertiary structures. We have systematically analyzed the amino acid frequencies as well as dipeptide count of GPs, LMPs and OtMPs. Based on the above calculated single amino acid frequency combined with dipeptide count information, we statistically discriminated LMPs from GPs and OtMPs. This approach correctly classified the LMPs with an accuracy of 95 %. On the other hand, the amino acid frequency alone can discriminate LMPs with an accuracy of only 79 %. Similarly dipeptide count alone has an accuracy of 87 % for the discrimination of LMPs. Thus the combined information of both amino acid frequencies and dipeptide composition gives us significant high accurate results.
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Abbreviations
- AA:
-
Amino acid
- LMPs:
-
Lysosome membrane proteins
- LSDs:
-
Lysosomal Storage Disorders
- GPs:
-
Globular proteins
- OtMPs:
-
Other membrane proteins
- PseAA:
-
Pseudo amino acid
- PDB:
-
Protein Databank
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Acknowledgments
VT and PT are thankful to University Grants Commission, New Delhi for a research fellowship. The work has been supported by a DBT-BIF Grant to DKG under its BTISNet scheme.
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Tripathi, V., Tripathi, P. & Gupta, D. Statistical approach for lysosomal membrane proteins (LMPs) identification. Syst Synth Biol 8, 313–319 (2014). https://doi.org/10.1007/s11693-014-9153-7
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DOI: https://doi.org/10.1007/s11693-014-9153-7