Bioinformatic approaches for modeling the substrate specificity of HIV-1 protease: an overview

Research output: Contribution to journalReview article


HIV-1 protease has a broad and complex substrate specificity, which hitherto has escaped a simple comprehensive definition. This, and the relatively high mutation rate of the retroviral protease, makes it challenging to design effective protease inhibitors. Several attempts have been made during the last two decades to elucidate the enigmatic cleavage specificity of HIV-1 protease and to predict cleavage of novel substrates using bioinformatic analysis methods. This review describes the methods that have been utilized to date to address this important problem and the results achieved. The data sets used are also reviewed and important aspects of these are highlighted.


  • Thorsteinn Rognvaldsson
  • Liwen You
  • Daniel Garwicz
Research areas and keywords

Subject classification (UKÄ) – MANDATORY

  • Hematology


  • protease, prediction, human immunodeficiency virus, HIV, bioinformatics, cleavage rule, physicochemical property
Original languageEnglish
Pages (from-to)435-451
JournalExpert Review of Molecular Diagnostics
Issue number4
Publication statusPublished - 2007
Publication categoryResearch