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Computational Molecular Biology 2014, Vol. 4, No. 14, 1-9
http://cmb.biopublisher.ca
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Research Report Open Access
Comparative structural analysis of cytokinin dehydrogenase enzymes of
O.sativa, A. thaliana and Zea mays leading to predict the best enzyme
Pranati Swain , Lambodar Behera
Central rice research institute, cuttack, odisha, India
Corresponding author email
Computational Molecular Biology, 2014, Vol.4, No.14 doi: 10.5376/cmb.2014.04.0014
Received: 03 Dec., 2014
Accepted: 26 Dec., 2014
Published: 30 Dec., 2014
© 2014
Swain and Behera, This is an open access article published under the terms of the Creative Commons Attribution License, which permits unrestricted
use, distribution, and reproduction in any medium, provided the original work is properly cited.
Preferred citation for this article:
Swain and Behera, 2014,
Comparative structural analysis of cytokinin dehydrogenase enzymes of O.sativa, A. thaliana and Zea mays leading to
predict the best enzyme
, Computational Molecular Biology, Vol.4, No.14, 1-9
(doi
Abstract
The cytokinin dehydrogenase enzymes of rice, wheat and maize were selected for this study. The enzymes of this crops
show the same function i.e, leading to high grain production. The CKX1, CKX2, CKX3, CKX4, CKX5, CKX6, CKX7 and CKX8
enzymes of these three crops vary from each other on the basis of their physico-chemical analysis. A brief study has been done on all
these enzymes showing the similarities, domains, secondary structures, homology models, backbone confirmations, best generated
models and functions. From the study we got that Q4ADV8 of
O.sativa
has the best secondary structure with strong helix, turns and
sheets along with highest molecular weight. A2XVN3 of
O.sativa
has the longest domain region, Q9FUJ1 of
A.thaliana
has highest
numbers of total negatively charged residues (ASP+GLU) and Q9LY71 of
A.thaliana
has highest numbers of total positively charged
residues (ARG+LYS). The Q9LTS3 of
A.thaliana
has highest VDW radius from geometric center. Q8LNV6 is the best model
depending upon the Z-score calculated by ANOLEA. from the above study it is concluded that the enzymes of
O.sativa
and
A.thaliana
has more strong physico-chemical characteristics than in comparision to the zea mays.
Keywords
Cytokinin dehydrogenase enzymes; Physico-chemical analysis; Domain region prediction; Predicting the best enzyme
Introduction
Due to the growth of population the demands for more
grain production are increasing day by day. The main
crops harvested in world are rice, maize and wheat.
These are the main source of food. Human beings
absorb many proteins from these crops. These crops
are blessed with such miraculous proteins which help
a lot in high grain production in order to fulfill the
demands. Here we have made a brief study about the
cytokinin dehydrogenase enzymes of rice, maize and
wheat leading to high grain production. cytokinin
dehydrogenase belongs tooxidoreductasefamily and
catalyzes the chemical reaction. Cytokinin dehydrogenase
is otherwise known as N6-dimethylallyladenine:
(acceptor) oxidoreductase, 6-N-dimethylallyladenine:
acceptor oxidoreductase, OsCKX2, CKX, and
cytokinin
oxidase/dehydrogenase.
cytokinin
dehydrogenase is helpfull in the degradation of
cytokininsisopentenyladenine, zeatin, and their
ribosides (chmülling et al., 2003).Gn1a gene of
rice possessescytokinin oxidase/dehydrogenase
(OsCKX2), an enzyme which degrades the
phytohormonecytokinin (Ashikari et al., 2005). The
Gn1a/OsCKX2 of Oryza sativa L, grain number
1a/Cytokinin oxidase 2 gene, encodes a cytokinin
oxidase, which acts as a major quantitative trait locus
contributing to grain number improvement in rice
breeding practice (Lia et al., 2012). In wheat the
CKX2 expression is activated by the IKU
transcription factor WRKY10 directly and promotes
endosperm growth (Li et al., 2013).In wheat the
growth control of endosperm by CKX2 integrates
genetic and epigenetic regulations. In angiosperms,
cytokines are highly active in endosperm, IKU
effectors coordinate environmental and physiological
factors, resulting in modulation of seed size. Higher
activity of the ckx3 ckx5 in wheat increase in seed
yield, highlighting the relevance of sink strength as a
yield factor. CKX3 and CKX5 regulate the activity of
the reproductive meristems of Arabidopsis thaliana
(Batrina et al., 2011). In this study we have considered
the CKX1 of
zea mays(Maize)
, CKX2 of
Oryza Sativa