From fold to function predictions: An apoptosis regulator protein BID

Krzysztof Pawłowski, Leszek Rychlewski, John C. Reed, Adam Godzik

Research output: Contribution to journalConference articlepeer-review

2 Scopus citations

Abstract

With the rapidly increasing pace of genome sequencing projects and the resulting flood of predicted amino acid sequences of uncharacterized proteins, protein sequence analysis, and in particular, protein structure prediction is quickly gaining in importance. Prediction algorithms can be used for preliminary annotation of newly sequenced proteins and, at least in some cases, provide insights into their function and specific mode of action. Such annotations for several microbial genomes were performed by several groups and placed in public domain for evaluation. An example presented in this work comes from a related project of structural and functional predictions for proteins involved in the process of controlled cell death (apoptosis). The BID protein belongs to an important class of regulators of apoptosis identified by short sequence motifs. Here, several fold prediction methods are used to build a series of three-dimensional models. Structure analysis of the models with reference to the biological data available allows selection of the most appropriate model. It is found that the most likely structural model of BID is built on the structure of Bcl-XL. The model is discussed in terms of experimental data on specific proteolytic cleavage of BID and its effect on BID interactions with other proteins and membranes.

Original languageEnglish (US)
Pages (from-to)511-517
Number of pages7
JournalComputers and Chemistry
Volume24
Issue number3-4
DOIs
StatePublished - 2000
Externally publishedYes
Event5th Conference on Computers in Chemistry and the Workshop on New Trends in Computational Methods for Large Molecular Systems 'New Trends in Computational Methods' - Szklarska Poreba, Poland
Duration: Jul 1 1999Jul 6 1999

Keywords

  • Apoptosis
  • BID
  • Modelling
  • Threading

ASJC Scopus subject areas

  • Biotechnology
  • Applied Microbiology and Biotechnology
  • Chemical Engineering(all)

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