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== Citation ==

Velazquez-Muriel, J. A.; Sorzano, C. O. S.; Scheres, S. H. W. & Carazo, J. M. SPI-EM: Towards a tool for predicting CATH superfamilies in 3D-EM maps J. Molecular Biology, 2005, 345, 759-771

[http://scholar.google.com/scholar?hl=en&lr=&newwindow=1&cites=3317231992756357779 Cited by]

== Abstract ==

In this paper the theoretical framework used to build a superfamily
probability in electron microscopy (SPI-EM) is presented. SPI-EM is a new
tool for determining the homologous superfamily to which a protein
domain belongs looking at its three-dimensional electron microscopy map.
The homologous superfamily is assigned according to the domainarchitecture
database CATH. Our method follows a probabilistic approach
applied to the results of fitting protein domains into maps of proteins and
the computation of local cross-correlation coefficient measures. The method
has been tested and its usefulness proven with isolated domains at a
resolution of 8A and 12A. Results obtained with simulated and
experimental data at 10A suggest that it is also feasible to detect the
correct superfamily of the domains when dealing with electron microscopy
maps containing multi-domain proteins. The inherent difficulties and
limitations that multi-domain proteins impose are discussed. Our
procedure is complementary to other techniques existing in the field to
detect structural elements in electron microscopy maps like a-helices and
b-sheets. Based on the proposed methodology, a database of relevant
distributions is being built to serve the community.

== Keywords ==

Fold recognition, fitting

== Links ==

Article http://linkinghub.elsevier.com/retrieve/pii/S0022283604014317

== Related software ==

== Related methods ==

== Comments ==

2005Velazquez Superfamilies - Revision history

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