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index [2017/10/16 15:01]
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index [2017/10/16 15:36] (current)
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 ===== How is CATH-Gene3D created? ===== ===== How is CATH-Gene3D created? =====
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-==== CATH ==== 
  
 Experimentally-determined protein three-dimensional structures are obtained from Experimentally-determined protein three-dimensional structures are obtained from
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 is used; assignments are made to the [[glossary:homologous_superfamily|Homologous superfamily]] (H) level if there is good evidence that the domains are related by evolution, i.e. they are is used; assignments are made to the [[glossary:homologous_superfamily|Homologous superfamily]] (H) level if there is good evidence that the domains are related by evolution, i.e. they are
 homologous. To browse the classification hierarchy, see [[http://cathdb.info/browse/tree|CATH hierarchy]]. homologous. To browse the classification hierarchy, see [[http://cathdb.info/browse/tree|CATH hierarchy]].
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-The conserved structural core in the homologous superfamilies can be observed from the structural superpositions generated from its representative domains by [[cath_tools#cath_tools|CATH Tools]]. It is an effective way of observing the structural conservation and diversity across the superfamily. 
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-==== Gene3D ==== 
  
 Additional sequence data for domains with no experimentally determined Additional sequence data for domains with no experimentally determined
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 We aim to provide full releases of CATH (CATH-Plus) every 12 months. CATH-Plus adds a significant amount of data on top of the core classification information available in CATH. The CATH-Plus release process includes a number of manual annotation checks in addition to adding a huge amount of information combining protein structure, sequence and function. As a result, there is a greater depth of information available in CATH-Plus, though it may be missing information on the most recent structures. We aim to provide full releases of CATH (CATH-Plus) every 12 months. CATH-Plus adds a significant amount of data on top of the core classification information available in CATH. The CATH-Plus release process includes a number of manual annotation checks in addition to adding a huge amount of information combining protein structure, sequence and function. As a result, there is a greater depth of information available in CATH-Plus, though it may be missing information on the most recent structures.
  
-CATH Plus data includes:+CATH-Plus data includes:
  
 +=== FunFams (Functional Families) ===
 +
 +The homologous superfamilies in CATH-Gene3D can often be functionally and structurally diverse even though they share a conserved structural core. Therefore, the superfamilies have been sub-classified into functional families (FunFams) using a subclassification protocol purely based on sequence patterns. Relatives within these FunFams are likely to share highly similar structures and functions. The FunFams are useful in function prediction and in providing information on the evolution of function.
 +
 +=== Structural clusters ===
 +
 +The structures within a homologous superfamily have been clustered at < 9 Å RMSD to form structural clusters, also known as structurally-similar groups (SSGs). These structural clusters are useful for understanding the structural diversity of a superfamily.
 +
 +=== Structural superpositions ===
 +
 +The conserved structural core in the homologous superfamilies can be observed from the structural superpositions generated from its representative domains by [[cath_tools#cath_tools|CATH Tools]]. It is an effective way of observing the structural conservation and diversity across the superfamily.
  
 See [[release_notes|release notes]] for information on the statistics for specific releases. See [[release_notes|release notes]] for information on the statistics for specific releases.
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