title: Domain definition and target classification for CASP6.
abstract: Assessment of structure predictions in CASP6 was based on single domains isolated from experimentally determined structures, which were categorized into comparative modeling, fold recognition, and new fold targets. Domain definitions were defined upon visual examination of the structures with the aid of automated domain-parsing programs. Domain categorization was determined by comparison of the target structures with those in the Protein Data Bank at the time each target expired and a variety of sequence and structure-based methods to determine potential homologous relationships.
authors.affiliation: Protein Design Group, CNB-CSIC, Calle Darwin, 28049 Cantoblanco, Spain.
authors.forename: Michael
authors.initials: M
authors.lastname: Tress
authors.affiliation: Molecular Modeling and Bioformatics Section, Laboratory of Molecular Modeling, Center for Cancer Research, National Institute of Health, Bethesda, Maryland.
authors.forename: Chin-Hsien
authors.initials: CH
authors.lastname: Tai
authors.affiliation: Institute for Cancer Research, Fox Chase Cancer Center, Philadelphia, Pennsylvania.
authors.forename: Guoli
authors.initials: G
authors.lastname: Wang
authors.affiliation: Protein Design Group, CNB-CSIC, Calle Darwin, 28049 Cantoblanco, Spain.
authors.forename: Iakes
authors.initials: I
authors.lastname: Ezkurdia
authors.affiliation: Protein Design Group, CNB-CSIC, Calle Darwin, 28049 Cantoblanco, Spain.
authors.forename: Gonzalo
authors.initials: G
authors.lastname: López
authors.affiliation: Protein Design Group, CNB-CSIC, Calle Darwin, 28049 Cantoblanco, Spain.
authors.forename: Alfonso
authors.initials: A
authors.lastname: Valencia
authors.affiliation: Molecular Modeling and Bioformatics Section, Laboratory of Molecular Modeling, Center for Cancer Research, National Institute of Health, Bethesda, Maryland.
authors.forename: Byungkook
authors.initials: B
authors.lastname: Lee
authors.affiliation: Institute for Cancer Research, Fox Chase Cancer Center, Philadelphia, Pennsylvania.
authors.forename: Roland L
authors.initials: RL
authors.lastname: Dunbrack
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D019295:Computational Biology / Q000379:methods* / Q000592:standards; D030562:Databases, Protein; D006801:Humans; D008958:Models, Molecular; D008969:Molecular Sequence Data; D017510:Protein Folding; D017433:Protein Structure, Secondary; D017434:Protein Structure, Tertiary; D011506:Proteins / Q000737:chemistry*; D040901:Proteomics / Q000379:methods* / Q000592:standards; D017386:Sequence Homology, Amino Acid
chemical_list: D011506:Proteins