Journal
BIOINFORMATICS
Volume 30, Issue 22, Pages 3279-3280Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btu510
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Funding
- Platform for Drug Discovery, Informatics and Structural Life Science, MEXT, Japanese Government
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Motivation: Kotai Antibody Builder is a Web service for tertiary structural modeling of antibody variable regions. It consists of three main steps: hybrid template selection by sequence alignment and canonical rules, 3D rendering of alignments and CDR-H3 loop modeling. For the last step, in addition to rule-based heuristics used to build the initial model, a refinement option is available that uses fragment assembly followed by knowledge-based scoring. Using targets from the Second Antibody Modeling Assessment, we demonstrate that Kotai Antibody Builder generates models with an overall accuracy equal to that of the best-performing semi-automated predictors using expert knowledge.
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