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International Journal of Computational Bioinformatics and In Silico Modeling
2014: Volume-3 Issue-3
ISSN: 2320-0634

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ABSTRACT   REFERENCES  
International Journal of Computational Bioinformatics and In Silico Modeling 3(3) 2014: 407-411

Analysis of Fold Classification Technique in FSSP Database



Manish Kumar1,* and Ajay Prakash2

1 Shri Venkateshwara University, Uttar Pradesh.
2 S.M College Chandausi, Uttar Pradesh

* Corresponding Author

ABSTRACT

The FSSP (Fold Classification based on Structure-Structure alignment of Proteins) is based on a structural alignment of all pairwise combinations of the proteins in DALI program. PDB has a number of redundant structures of proteins whose sequences and structures are 30% or more identical. A set of representative structures within PDB without these redundant entries was first produced by aligning all of the PDB structures with DALI. Thus each protein in the subset was then subdivided into individual domains. These domains were then aligned structurally with DALI to identify common folds. Again redundant folds were eliminated, after that a set of representative folds were chosen. Therefore there is a cluster of folds that corresponds to every representative fold type that are of the similar approximate structure. Thus the domains that have already a given cluster of folds are structurally connected, and therefore the cluster is drawn by structural alignments of these domains. Thus, fold clusters could also be organized in a hierarchical fashion with folds drawn by the most low-scoring alignments at the top of the hierarchy.

 


Copyright © 2014 | AIZEON publishers | All rights reserved

 

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Citation: Manish Kumar and Ajay Prakash. (2014). Analysis of Fold Classification Technique in FSSP Database. Int J Comput Bioinfo In Silico Model 3(3): 407-411

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