International Tables for Crystallography (2012). Vol. F. ch. 21.3, pp. 677-683   | 1 | 2 |
https://doi.org/10.1107/97809553602060000881

Chapter 21.3. Detection of errors in protein models

Contents

  • 21.3. Detection of errors in protein models  (pp. 677-683) | html | pdf | chapter contents |
    O. Dym, D. Eisenberg and T. O. Yeates
    • 21.3.1. Motivation and introduction  (p. 677) | html | pdf |
    • 21.3.2. Separating evaluation from refinement  (p. 677) | html | pdf |
    • 21.3.3. Algorithms for the detection of errors in protein models and the types of errors they detect  (pp. 677-679) | html | pdf |
      • 21.3.3.1. PROCHECK  (pp. 677-678) | html | pdf |
      • 21.3.3.2. WHAT IF  (p. 678) | html | pdf |
      • 21.3.3.3. VERIFY3D  (p. 678) | html | pdf |
      • 21.3.3.4. ERRAT  (pp. 678-679) | html | pdf |
    • 21.3.4. Selection of database  (p. 679) | html | pdf |
    • 21.3.5. Examples: detection of errors in structures  (pp. 679-682) | html | pdf |
      • 21.3.5.1. Specific examples  (pp. 679-682) | html | pdf |
      • 21.3.5.2. Survey of old and revised structures  (p. 682) | html | pdf |
    • 21.3.6. Summary  (p. 682) | html | pdf |
    • 21.3.7. Availability of software  (p. 682) | html | pdf |
    • References | html | pdf |
    • Figures
      • Fig. 21.3.5.1. Detection of errors in the small subunit of ribulose-1,5-bisphospate carboxylase/oxygenase (RuBisCO)  (p. 679) | html | pdf |
      • Fig. 21.3.5.2. The detection of model errors due to refinement in an incorrect space group: an example (3xia.coor) from the archive of obsolete PDB entries  (p. 680) | html | pdf |
      • Fig. 21.3.5.3. The usefulness of validation programs during model building is suggested by the example of the triacylglycerol lipase from Pseudomonas cepacia at different stages of atomic refinement  (p. 681) | html | pdf |
      • Fig. 21.3.5.4. VERIFY3D profile plots of diphtheria toxin (DT) in three forms: open and closed monomers and the dimer  (p. 681) | html | pdf |
      • Fig. 21.3.5.5. Evaluation of old and revised models in a database survey by ERRAT  (p. 682) | html | pdf |