©1996-2009 All Rights Reserved.
Online Journal of Bioinformatics . You may not store
these pages in any form except for your own personal use. All other usage or
distribution is illegal under international copyright treaties. Permission to
use any of these pages in any other way besides the
before mentioned must be gained in writing from the publisher. This
article is exclusively copyrighted in its entirety to OJB publications. This
article may be copied once but may not be, reproduced or
re-transmitted without the express permission of the editors. This journal satisfies the refereeing requirements
(DEST) for the Higher Education Research Data Collection (Australia). Linking:To link to this page or
any pages linking to this page you must link directly to this page only here
rather than put up your own page.
OJBTM
Online Journal of Bioinformatics©
Volume 8 (1):115-138, 2007
In-silico TAT-PTD
prediction for cell penetrating peptides.
Tandon C, Aggarwal
A, Goel P, Sengupta D, Naik P
Department of
Biotechnology and Bioinformatics,
ABSTRACT
Tandon C, Aggarwal
A, Goel P, Sengupta D, Naik P., In-silico TAT-PTD
prediction for cell penetrating peptides, Online J Bioinformatics, 8 (1):115-138, 2007. Cell Penetrating Peptides
(CPP) enhance transport of membrane and secretory proteins across hydrophobic membranes. Natural or
synthetic CPP water soluble peptides translocate
across cell membranes and are used for intracellular delivery of large
hydrophilic molecules. HIV-TAT PTD with an amino acid sequence of YGRKKRRQRRR is the core of
TAT protein in HIV, with 8 of its 11 TAT-PTD amino acids being hydrophilic yet
this molecule diffuses readily through hydrophobic bi-lipid membranes. The
effect of charged amino-acids in TAT-PTD on membrane transport was therefore
evaluated In silico. A
dataset of 168 sequences was created mutating the original TAT-PTD 11-amino
acid sequence. Qikprop was used to predict ADME
properties and a correlation of R2 = 73.7% between partition
coefficient and skin permeability was found.
Keywords: Partition
Coefficient, Skin Permeability, TAT- PTD, Cell Penetrating Peptides, Homology modeling.