Completion of autobuilt protein models using a database of protein fragments
Open Access
- 16 March 2012
- journal article
- research article
- Published by International Union of Crystallography (IUCr) in Acta Crystallographica Section D-Biological Crystallography
- Vol. 68 (4) , 328-335
- https://doi.org/10.1107/s0907444911039655
Abstract
Two developments in the process of automated protein model building in theBuccaneersoftware are presented. A general-purpose library for protein fragments of arbitrary size is described, with a highly optimized search method allowing the use of a larger database than in previous work. The problem of assembling an autobuilt model into complete chains is discussed. This involves the assembly of disconnected chain fragments into complete molecules and the use of the database of protein fragments in improving the model completeness. Assembly of fragments into molecules is a standard step in existing model-building software, but the methods have not received detailed discussion in the literature.Keywords
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