title: Completion of autobuilt protein models using a database of protein fragments.
abstract: Two developments in the process of automated protein model building in the Buccaneer software 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.
authors.affiliation: Department of Chemistry, University of York, Heslington, York YO10 5DD, England. cowtan@ysbl.york.ac.uk
authors.forename: Kevin
authors.initials: K
authors.lastname: Cowtan
mesh_terms: D018360:Crystallography, X-Ray; D030562:Databases, Protein; D008958:Models, Molecular; D010446:Peptide Fragments / Q000737:chemistry*; D017434:Protein Structure, Tertiary; D012984:Software
chemical_list: D010446:Peptide Fragments