Secondary Structure, a Missing Component of Sequence-Based Minimotif Definitions

David P. Sargeant, Michael R. Gryk, Mark W. Maciejewski, Vishal Thapar, Vamsi Kundeti, Sanguthevar Rajasekaran, Pedro Romero, A. Dunker, Shun Cheng Li, Tomonori Kaneko, Martin R. Schiller

Research output: Contribution to journalArticle

5 Citations (Scopus)

Abstract

Minimotifs are short contiguous segments of proteins that have a known biological function. The hundreds of thousands of minimotifs discovered thus far are an important part of the theoretical understanding of the specificity of protein-protein interactions, posttranslational modifications, and signal transduction that occur in cells. However, a longstanding problem is that the different abstractions of the sequence definitions do not accurately capture the specificity, despite decades of effort by many labs. We present evidence that structure is an essential component of minimotif specificity, yet is not used in minimotif definitions. Our analysis of several known minimotifs as case studies, analysis of occurrences of minimotifs in structured and disordered regions of proteins, and review of the literature support a new model for minimotif definitions that includes sequence, structure, and function.

Original languageEnglish
Article numbere49957
JournalPLoS One
Volume7
Issue number12
DOIs
StatePublished - Dec 7 2012

Fingerprint

post-translational modification
protein-protein interactions
signal transduction
Proteins
proteins
case studies
Signal transduction
Post Translational Protein Processing
Signal Transduction
cells

ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Medicine(all)

Cite this

Sargeant, D. P., Gryk, M. R., Maciejewski, M. W., Thapar, V., Kundeti, V., Rajasekaran, S., ... Schiller, M. R. (2012). Secondary Structure, a Missing Component of Sequence-Based Minimotif Definitions. PLoS One, 7(12), [e49957]. https://doi.org/10.1371/journal.pone.0049957

Secondary Structure, a Missing Component of Sequence-Based Minimotif Definitions. / Sargeant, David P.; Gryk, Michael R.; Maciejewski, Mark W.; Thapar, Vishal; Kundeti, Vamsi; Rajasekaran, Sanguthevar; Romero, Pedro; Dunker, A.; Li, Shun Cheng; Kaneko, Tomonori; Schiller, Martin R.

In: PLoS One, Vol. 7, No. 12, e49957, 07.12.2012.

Research output: Contribution to journalArticle

Sargeant, DP, Gryk, MR, Maciejewski, MW, Thapar, V, Kundeti, V, Rajasekaran, S, Romero, P, Dunker, A, Li, SC, Kaneko, T & Schiller, MR 2012, 'Secondary Structure, a Missing Component of Sequence-Based Minimotif Definitions', PLoS One, vol. 7, no. 12, e49957. https://doi.org/10.1371/journal.pone.0049957
Sargeant DP, Gryk MR, Maciejewski MW, Thapar V, Kundeti V, Rajasekaran S et al. Secondary Structure, a Missing Component of Sequence-Based Minimotif Definitions. PLoS One. 2012 Dec 7;7(12). e49957. https://doi.org/10.1371/journal.pone.0049957
Sargeant, David P. ; Gryk, Michael R. ; Maciejewski, Mark W. ; Thapar, Vishal ; Kundeti, Vamsi ; Rajasekaran, Sanguthevar ; Romero, Pedro ; Dunker, A. ; Li, Shun Cheng ; Kaneko, Tomonori ; Schiller, Martin R. / Secondary Structure, a Missing Component of Sequence-Based Minimotif Definitions. In: PLoS One. 2012 ; Vol. 7, No. 12.
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