International Tables for Crystallography (2006). Vol. F. ch. 21.3, pp. 520-530   | 1 | 2 |
https://doi.org/10.1107/97809553602060000709

Chapter 21.3. Detection of errors in protein models

Contents

  • 21.3. Detection of errors in protein models  (pp. 520-530) | html | pdf | chapter contents |
    O. Dym, D. Eisenberg and T. O. Yeates
    • 21.3.1. Motivation and introduction  (p. 520) | html | pdf |
    • 21.3.2. Separating evaluation from refinement  (p. 520) | html | pdf |
    • 21.3.3. Algorithms for the detection of errors in protein models and the types of errors they detect  (pp. 520-521) | html | pdf |
      • 21.3.3.1. PROCHECK   (pp. 520-521) | html | pdf |
      • 21.3.3.2. WHAT IF   (p. 521) | html | pdf |
      • 21.3.3.3. VERIFY3D   (p. 521) | html | pdf |
      • 21.3.3.4. ERRAT   (p. 521) | html | pdf |
    • 21.3.4. Selection of database  (p. 521) | html | pdf |
    • 21.3.5. Examples: detection of errors in structures  (pp. 521-525) | html | pdf |
      • 21.3.5.1. Specific examples  (pp. 521-524) | html | pdf |
      • 21.3.5.2. Survey of old and revised structures  (pp. 524-525) | html | pdf |
    • 21.3.6. Summary  (p. 525) | html | pdf |
    • 21.3.7. Availability of software  (p. 525) | 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. 522) | 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. 523) | 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. 524) | 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. 524) | html | pdf |
      • Fig. 21.3.5.5. Evaluation of old and revised models in a database survey by ERRAT  (p. 525) | html | pdf |