The architectonic fold similarity network in protein fold space |
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Authors: | Z-B Sun X-W Zou W Guan Z-Z Jin |
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Institution: | (1) Department of Physics, Wuhan University, Wuhan, 430072, P.R. China |
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Abstract: | By constructing the fold similarity network (FSN), we
present an alternative approach to the characteristic and
architecture of protein fold space. The degree distribution P(k)
of FSN differs far from that of the random network with the same
number of nodes and connections. The investigation shows that FSN
possesses small-world property and broad-scale feature. In order
to access to the assumption of the dynamics behavior for FSN, we
design a simple evolutionary dynamics model based on the
duplication and variation fashions of protein folds. The
simulation network generated by this model is a small-world one
and reproduces the broad-scale degree distribution consistent with
that of FSN. It seems that this model can be used to depict the
divergent evolution and expanding progress of protein fold space. |
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Keywords: | |
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