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 Results for DC.creator="T." AND DC.creator="O." AND DC.creator="Yeates"
Detection of errors in protein models
Dym, O., Eisenberg, D. and Yeates, T. O.  International Tables for Crystallography (2012). Vol. F, ch. 21.3, pp. 677-683 [ doi:10.1107/97809553602060000881 ]
... 1993), WHAT IF (Vriend, 1990; Vriend & Sander, 1993), ERRAT (Colovos & Yeates, 1993), and VERIFY3D (Lüthy et al., 1992; Bowie et ... the side-chain area that is covered by polar atoms (O and N), and the local secondary structure. The 3D profile ... its amino-acid sequence. 21.3.3.4. ERRAT | | The program ERRAT (Colovos & Yeates, 1993) analyses the relative frequencies of noncovalent interactions between ...

Summary
Dym, O., Eisenberg, D. and Yeates, T. O.  International Tables for Crystallography (2012). Vol. F, Section 21.3.6, p. 682 [ doi:10.1107/97809553602060000881 ]
Summary 21.3.6. Summary In order to ensure the quality of the growing protein structure databases, models must be evaluated carefully during and after the structure determination process. Model evaluation can incorporate two types of measures: agreement between the model and the experimental diffraction data, and agreement between the model and the ...

Survey of old and revised structures
Dym, O., Eisenberg, D. and Yeates, T. O.  International Tables for Crystallography (2012). Vol. F, Section 21.3.5.2, p. 682 [ doi:10.1107/97809553602060000881 ]
Survey of old and revised structures 21.3.5.2. Survey of old and revised structures The past two decades have seen a surge of development in the experimental techniques of crystal structure determination. As a consequence, many structures originally solved at low resolution were later determined at higher resolution, often starting with improved ...
     [more results from section 21.3.5 in volume F]

Selection of database
Dym, O., Eisenberg, D. and Yeates, T. O.  International Tables for Crystallography (2012). Vol. F, Section 21.3.4, p. 679 [ doi:10.1107/97809553602060000881 ]
Selection of database 21.3.4. Selection of database Regardless of the specific approach or the specific criteria for validating structural models, a reliable reference database has to be chosen by careful selection of known structures. Suitable criteria to consider when selecting a database are: protein structures determined to resolutions of 2.5Ċ or ...

ERRAT
Dym, O., Eisenberg, D. and Yeates, T. O.  International Tables for Crystallography (2012). Vol. F, Section 21.3.3.4, pp. 678-679 [ doi:10.1107/97809553602060000881 ]
ERRAT 21.3.3.4. ERRAT The program ERRAT (Colovos & Yeates, 1993) analyses the relative frequencies of noncovalent interactions between atoms ... level. Three types of atoms are considered (C, N and O), and consequently six types of interactions are possible (CC, CN ... identifying incorrectly built regions in protein models. References Colovos, C. & Yeates, T. O. (1993). Verification of protein structures: patterns ...
     [more results from section 21.3.3 in volume F]

Separating evaluation from refinement
Dym, O., Eisenberg, D. and Yeates, T. O.  International Tables for Crystallography (2012). Vol. F, Section 21.3.2, p. 677 [ doi:10.1107/97809553602060000881 ]
... a proposed model can be identified. References Brünger, A. T. (1992). Free R value: a novel statistical quantity for ...

Motivation and introduction
Dym, O., Eisenberg, D. and Yeates, T. O.  International Tables for Crystallography (2012). Vol. F, Section 21.3.1, p. 677 [ doi:10.1107/97809553602060000881 ]
... 1993), WHAT IF (Vriend, 1990; Vriend & Sander, 1993), ERRAT (Colovos & Yeates, 1993), and VERIFY3D (Lüthy et al., 1992; Bowie et ... known three-dimensional structure. Science, 253, 164-170. Colovos, C. & Yeates, T. O. (1993). Verification of protein structures: patterns of ...

Availability of software
Dym, O., Eisenberg, D. and Yeates, T. O.  International Tables for Crystallography (2012). Vol. F, Section 21.3.7, p. 682 [ doi:10.1107/97809553602060000881 ]
Availability of software 21.3.7. Availability of software The programs ERRAT and VERIFY3D are available on the World Wide Web for non-commercial applications. The URL for VERIFY3D is http://nihserver.mbi.ucla.edu/Verify_3D/ and the URL for ERRAT is http://nihserver.mbi.ucla.edu/ERRATv2/ . VERIFY3D and ERRAT expect a coordinate file in PDB ...

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