PHENIX: a comprehensive Python-based system for macromolecular structure solution

Adams, P.D.; Afonine, P.V.; Bunkóczi, G.; Chen, V.B.; Davis, I.W.; Echols, N.; Headd, J.J.; Hung, L.-W.; Kapral, G.J.; Grosse-Kunstleve, R.W.; McCoy, A.J.; Moriarty, N.W.; Oeffner, R.; Read, R.J.; Richardson, D.C.; Richardson, J.S.; Terwilliger, T.C.; Zwart, P.H.

doi:10.1107/97809553602060000865

International Tables for Crystallography (2012). Vol. F. ch. 18.11, pp. 539-547
https://doi.org/10.1107/97809553602060000865

Chapter 18.11. PHENIX: a comprehensive Python-based system for macromolecular structure solution

18.11. PHENIX: a comprehensive Python-based system for macromolecular structure solution (pp. 539-547) | html | pdf | chapter contents |
P. D. Adams, P. V. Afonine, G. Bunkóczi, V. B. Chen, I. W. Davis, N. Echols, J. J. Headd, L.-W. Hung, G. J. Kapral, R. W. Grosse-Kunstleve, A. J. McCoy, N. W. Moriarty, R. Oeffner, R. J. Read, D. C. Richardson, J. S. Richardson, T. C. Terwilliger and P. H. Zwart
- 18.11.1. Foundations (p. 539) | html | pdf |
  - 18.11.1.1. PHENIX architecture (p. 539) | html | pdf |
  - 18.11.1.2. Graphical user interface (p. 539) | html | pdf |
- 18.11.2. Analysis of experimental data (p. 540) | html | pdf |
- 18.11.3. Substructure determination, phasing and molecular replacement (pp. 540-541) | html | pdf |
  - 18.11.3.1. Substructure determination (p. 540) | html | pdf |
  - 18.11.3.2. Phasing (p. 540) | html | pdf |
  - 18.11.3.3. Noncrystallographic symmetry (NCS) (pp. 540-541) | html | pdf |
- 18.11.4. Model building, ligand fitting and nucleic acids (pp. 541-542) | html | pdf |
  - 18.11.4.1. Model building (p. 541) | html | pdf |
  - 18.11.4.2. Ligand fitting (p. 541) | html | pdf |
  - 18.11.4.3. RNA and DNA (p. 541) | html | pdf |
  - 18.11.4.4. Maps, models and avoiding bias (p. 542) | html | pdf |
- 18.11.5. Model, and model-to-data, validation (pp. 542-543) | html | pdf |
  - 18.11.5.1. Model and structure-factor manipulation and analysis (pp. 542-543) | html | pdf |
- 18.11.6. Structure refinement (pp. 543-544) | html | pdf |
  - 18.11.6.1. Ligand-coordinate and restraint-geometry generation (pp. 543-544) | html | pdf |
- 18.11.7. Integrated structure determination (pp. 544-545) | html | pdf |
  - 18.11.7.1. Why automation? (p. 544) | html | pdf |
  - 18.11.7.2. Automated structure solution (p. 544) | html | pdf |
  - 18.11.7.3. Iterative model building, density modification and refinement (pp. 544-545) | html | pdf |
- 18.11.8. Conclusions (p. 545) | html | pdf |
- References | html | pdf |

Chapter 18.11. PHENIX: a comprehensive Python-based system for macromolecular structure solution

Contents