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International Journal of Computational Bioinformatics and In Silico Modeling
2013: Volume-2 Issue-4
ISSN: 2320-0634

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ABSTRACT   REFERENCES  
International Journal of Computational Bioinformatics and In Silico Modeling 2(4) 2013: 152-158

Modelling transmembrane region in G8 protein of Human and other organisms


Mamta Sagar1*, Padma Saxena2, Neetesh Pandey1 and Dev Bukhsh Singh3

1 Department of Bioinformatics, University Institute of Engineering and Technology, Chhatrapati Shahu Ji Maharaj University, Kanpur-208024.
2 Department of Zoology, Dayanand Anglo Vedic Post Graduate College, Chhatrapati Shahu Ji Maharaj University, Kanpur-208024.
3 Department of Biotechnology, Institute of Biosciences and Biotechnology, Chhatrapati Shahu Ji Maharaj University, Kanpur-208024.

* Corresponding Author

ABSTRACT

The G8 (for eight conserved glycine residues) domain act as half ABC trasporter is widely distributed, found in Homo sapiens. Uncharacterized Homolgs of this protein was obtained by sequence similarity search using BLAST and further analysed by multiple sequence alignment in Pan troglodytes, Nomascus leucogenys, Pongo abelii and Nomascus leucogenys. Phylogenetic results indicate that G8 protein of Homo sapiens is highly similar to G8 protein of Pan troglodytes, Nomascus leucogenys and closely related. Structure Modelling is done to predict structural similarities among transmembrane regions and its role as a transporter protein. Transmembrane prediction shows it is non-cytoplasmic in all organisms.  Multiple sequence alignment analysis of transmembrane region indicates significant similarity except few amino acids, proline at 20th and histidine at 42nd position are present in human protein but leucine and arginine are present respectively in protein of Pan troglodyte. SSCH(R) LI motif is predicted among four sequences except in GIR3J8 protein of Nomascus leucogenys. Modeled structure of G8 proteins of Homo sapiens shows close similarities with its homologues inother three organisms. Transmembrane region LLWYLVFQYLLPGAGYILR using HMMPLOT is predicted in G1R3J8_NOMLE protein of Nomascus leucogenys but not in other sequences. Human G8 protein shows similarity to subunit an isoform 1 Q9Z1G4V-type proton ATPase (116 kDa) in Mus musculus which contain V type domain and Vacuolar proton translocating ATPase protein (Q93050) in Homo sapiens.


Copyright © 2013 | AIZEON publishers | All rights reserved

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Citation: Mamta Sagar et al. (2013). Modelling transmembrane region in G8 protein of Human and other organisms. Int J Comput Bioinfo In Silico Model 2(4): 152-158

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