Protein subfamily explained

Protein subfamily is a level of protein classification, based on their close evolutionary relationship. It is below the larger levels of protein superfamily and protein family.[1]

Proteins typically share greater sequence and function similarities with other subfamily members than they do with members of their wider family.[2] For example, in the Structural Classification of Proteins database classification system, members of a subfamily share the same interaction interfaces and interaction partners.[3] These are stricter criteria than for a family, where members have similar structures, but may be more distantly related and so have different interfaces. Subfamilies are assigned by a variety of methods, including sequence similarity,[4] motifs linked to function,[5] or phylogenetic clade.[6] [7] There is no exact and consistent distinction between a subfamily and a family. The same group of proteins may sometimes be described as a family or a subfamily, depending on the context.

External links

Notes and References

  1. News: What are protein families?. 2011-11-18. EMBL-EBI Train online. 2018-03-08. en.
  2. Das. Sayoni. Orengo. Christine A.. Protein function annotation using protein domain family resources. Methods. 93. 24–34. 10.1016/j.ymeth.2015.09.029. 26434392. 2016.
  3. Rausell. Antonio. Juan. David. Pazos. Florencio. Valencia. Alfonso. 2010-02-02. Protein interactions and ligand binding: From protein subfamilies to functional specificity. Proceedings of the National Academy of Sciences. 107. 5. 1995–2000. 10.1073/pnas.0908044107. 20133844. 2808218. 2010PNAS..107.1995R. free.
  4. Brown. Duncan P.. Krishnamurthy. Nandini. Sjölander. Kimmen. 2007-08-17. Automated Protein Subfamily Identification and Classification. PLOS Computational Biology. en. 3. 8. e160. 10.1371/journal.pcbi.0030160. 17708678. 1950344. 2007PLSCB...3..160B. 1553-7358 . free .
  5. Eisen. Jonathan A.. Sweder. Kevin S.. Hanawalt. Philip C.. 1995-07-25. Evolution of the SNF2 family of proteins: subfamilies with distinct sequences and functions. Nucleic Acids Research. en. 23. 14. 2715–2723. 10.1093/nar/23.14.2715. 7651832. 307096. 0305-1048.
  6. Wicker. Nicolas. Perrin. Guy René. Thierry. Jean Claude. Poch. Olivier. 2001-08-01. Secator: A Program for Inferring Protein Subfamilies from Phylogenetic Trees. Molecular Biology and Evolution. en. 18. 8. 1435–1441. 10.1093/oxfordjournals.molbev.a003929. 11470834. 0737-4038. free.
  7. Mi. Huaiyu. Poudel. Sagar. Muruganujan. Anushya. Casagrande. John T.. Thomas. Paul D.. 2016-01-04. PANTHER version 10: expanded protein families and functions, and analysis tools. Nucleic Acids Research. en. 44. D1. D336–D342. 10.1093/nar/gkv1194. 26578592. 0305-1048. 4702852.

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