The testing plugin is enabled and should be disabled.

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

glossary:homologous_superfamily [2008/08/21 14:34]
cuff
glossary:homologous_superfamily [2008/09/19 10:36] (current)
garner
Line 1: Line 1:
 +{{tag>structure}}
 +
 +===== Homologous Superfamily =====
 +
 +This level of the CATH hierarchy groups together protein domains which are thought to share a common ancestor and can therefore be described as homologous. Similarities are identified either by high sequence identity or structure comparison using [[glossary:ssap | SSAP]]. Structures are clustered into the same homologous superfamily if they satisfy two or more of the following criteria:
 +
 +    * Sequence identity >= 35%, overlap >= 60% of larger structure equivalent to smaller.
 +    * SSAP score >= 80.0, sequence identity >= 20%, overlap 60% of larger structure equivalent to smaller.
 +    * SSAP score >= 70.0, overlap 60% of larger structure equivalent to smaller; domains which have related functions, which is informed by the literature and Pfam protein family database.
 +    * Significant similarity from HMM-sequence searches and HMM-HMM comparisons using SAM, HMMER (http://hmmer.wustl.edu) and PRC (http://supfam.org/PRC).
 +
 +
 +===== References =====
 +
 +{{pubmed>long:14681378}}
 +{{pubmed>long:8744772}}
  
Print/export