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The CATH Hierarchy Revisited—Structural Divergence in Domain Superfamilies and the Continuity of Fold Space
This paper explores the structural continuum in CATH and the extent to which superfamilies adopt distinct folds. Although most superfamilies are structurally conserved, in some of the most highly populated superfamilies (4% of all superfamilies) there is considerable structural divergence. While rel...
Autores principales: | , , , , , , , , , , , , |
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Formato: | Texto |
Lenguaje: | English |
Publicado: |
Cell Press
2009
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2741583/ https://www.ncbi.nlm.nih.gov/pubmed/19679085 http://dx.doi.org/10.1016/j.str.2009.06.015 |
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author | Cuff, Alison Redfern, Oliver C. Greene, Lesley Sillitoe, Ian Lewis, Tony Dibley, Mark Reid, Adam Pearl, Frances Dallman, Tim Todd, Annabel Garratt, Richard Thornton, Janet Orengo, Christine |
author_facet | Cuff, Alison Redfern, Oliver C. Greene, Lesley Sillitoe, Ian Lewis, Tony Dibley, Mark Reid, Adam Pearl, Frances Dallman, Tim Todd, Annabel Garratt, Richard Thornton, Janet Orengo, Christine |
author_sort | Cuff, Alison |
collection | PubMed |
description | This paper explores the structural continuum in CATH and the extent to which superfamilies adopt distinct folds. Although most superfamilies are structurally conserved, in some of the most highly populated superfamilies (4% of all superfamilies) there is considerable structural divergence. While relatives share a similar fold in the evolutionary conserved core, diverse elaborations to this core can result in significant differences in the global structures. Applying similar protocols to examine the extent to which structural overlaps occur between different fold groups, it appears this effect is confined to just a few architectures and is largely due to small, recurring super-secondary motifs (e.g., αβ-motifs, α-hairpins). Although 24% of superfamilies overlap with superfamilies having different folds, only 14% of nonredundant structures in CATH are involved in overlaps. Nevertheless, the existence of these overlaps suggests that, in some regions of structure space, the fold universe should be seen as more continuous. |
format | Text |
id | pubmed-2741583 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2009 |
publisher | Cell Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-27415832009-09-17 The CATH Hierarchy Revisited—Structural Divergence in Domain Superfamilies and the Continuity of Fold Space Cuff, Alison Redfern, Oliver C. Greene, Lesley Sillitoe, Ian Lewis, Tony Dibley, Mark Reid, Adam Pearl, Frances Dallman, Tim Todd, Annabel Garratt, Richard Thornton, Janet Orengo, Christine Structure Article This paper explores the structural continuum in CATH and the extent to which superfamilies adopt distinct folds. Although most superfamilies are structurally conserved, in some of the most highly populated superfamilies (4% of all superfamilies) there is considerable structural divergence. While relatives share a similar fold in the evolutionary conserved core, diverse elaborations to this core can result in significant differences in the global structures. Applying similar protocols to examine the extent to which structural overlaps occur between different fold groups, it appears this effect is confined to just a few architectures and is largely due to small, recurring super-secondary motifs (e.g., αβ-motifs, α-hairpins). Although 24% of superfamilies overlap with superfamilies having different folds, only 14% of nonredundant structures in CATH are involved in overlaps. Nevertheless, the existence of these overlaps suggests that, in some regions of structure space, the fold universe should be seen as more continuous. Cell Press 2009-08-12 /pmc/articles/PMC2741583/ /pubmed/19679085 http://dx.doi.org/10.1016/j.str.2009.06.015 Text en © 2009 ELL & Excerpta Medica. https://creativecommons.org/licenses/by/3.0/ Open Access under CC BY 3.0 (https://creativecommons.org/licenses/by/3.0/) license |
spellingShingle | Article Cuff, Alison Redfern, Oliver C. Greene, Lesley Sillitoe, Ian Lewis, Tony Dibley, Mark Reid, Adam Pearl, Frances Dallman, Tim Todd, Annabel Garratt, Richard Thornton, Janet Orengo, Christine The CATH Hierarchy Revisited—Structural Divergence in Domain Superfamilies and the Continuity of Fold Space |
title | The CATH Hierarchy Revisited—Structural Divergence in Domain Superfamilies and the Continuity of Fold Space |
title_full | The CATH Hierarchy Revisited—Structural Divergence in Domain Superfamilies and the Continuity of Fold Space |
title_fullStr | The CATH Hierarchy Revisited—Structural Divergence in Domain Superfamilies and the Continuity of Fold Space |
title_full_unstemmed | The CATH Hierarchy Revisited—Structural Divergence in Domain Superfamilies and the Continuity of Fold Space |
title_short | The CATH Hierarchy Revisited—Structural Divergence in Domain Superfamilies and the Continuity of Fold Space |
title_sort | cath hierarchy revisited—structural divergence in domain superfamilies and the continuity of fold space |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2741583/ https://www.ncbi.nlm.nih.gov/pubmed/19679085 http://dx.doi.org/10.1016/j.str.2009.06.015 |
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