Title: Protein design with fragment databases
Authors: Verschueren, Erik ×
Vanhee, Peter
van der Sloot, Almer M
Serrano, Luis
Rousseau, Frederic
Schymkowitz, Joost #
Issue Date: Aug-2011
Publisher: Current Biology
Series Title: Current Opinion in Structural Biology vol:21 issue:4 pages:452-459
Abstract: Structure-based computational methods are popular tools for designing proteins and interactions between proteins because they provide the necessary insight and details required for rational engineering. Here, we first argue that large-scale databases of fragments contain a discrete but complete set of building blocks that can be used to design structures. We show that these structural alphabets can be saturated to provide conformational ensembles that sample the native structure space around energetic minima. Second, we show that catalogs of interaction patterns hold the key to overcome the lack of scaffolds when computationally designing protein interactions. Finally, we illustrate the power of database-driven computational protein design methods by recent successful applications and discuss what challenges remain to push this field forward.
ISSN: 0959-440X
Publication status: published
KU Leuven publication type: IT
Appears in Collections:Non-KU Leuven Association publications
× corresponding author
# (joint) last author

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