modify your search
 Results for DC.creator="R." AND DC.creator="Oeffner"
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. and Zwart, P.H.  International Tables for Crystallography (2012). Vol. F, ch. 18.11, pp. 539-547 [ doi:10.1107/97809553602060000865 ]
... laws are present. If a model has been supplied, an R versus R (Lebedev et al., 2006) analysis is carried out. This type ... to indicate the similarity of validation parameters, such as free R value, for a particular structure compared with those deposited ...

Iterative model building, density modification and refinement
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. and Zwart, P.H.  International Tables for Crystallography (2012). Vol. F, Section 18.11.7.3, pp. 544-545 [ doi:10.1107/97809553602060000865 ]
... position of that atom. References Afonine, P. V., Grosse-Kunstleve, R. W. & Adams, P. D. (2005). The Phenix refinement framework. ... Acta Cryst. D60, 2144-2149. Terwilliger, T. C., Grosse-Kunstleve, R. W., Afonine, P. V., Adams, P. D., Moriarty, N. W., Zwart, P., Read, R. J., Turk, D. & Hung, L.-W. (2007). Interpretation ...
     [more results from section 18.11.7 in volume F]

Ligand-coordinate and restraint-geometry generation
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. and Zwart, P.H.  International Tables for Crystallography (2012). Vol. F, Section 18.11.6.1, pp. 543-544 [ doi:10.1107/97809553602060000865 ]
... ligands are also generated. References Moriarty, N. W., Grosse-Kunstleve, R. W. & Adams, P. D. (2009). electronic Ligand Builder and ...
     [more results from section 18.11.6 in volume F]

Model and structure-factor manipulation and analysis
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. and Zwart, P.H.  International Tables for Crystallography (2012). Vol. F, Section 18.11.5.1, pp. 542-543 [ doi:10.1107/97809553602060000865 ]
Model and structure-factor manipulation and analysis 18.11.5.1. Model and structure-factor manipulation and analysis PHENIX has a range of tools for displaying, analysing and manipulating structure-factor and model information. Phenix.mtz.dump and phenix.cif_as_mtz display and convert structure-factor data. Phenix.print_sequence, phenix.pdb_atom_selection and phenix.pdbtools display and ...
     [more results from section 18.11.5 in volume F]

Maps, models and avoiding bias
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. and Zwart, P.H.  International Tables for Crystallography (2012). Vol. F, Section 18.11.4.4, p. 542 [ doi:10.1107/97809553602060000865 ]
... 144-150. Lunin, V. Yu. & Skovoroda, T. P. (1995). R-free likelihood-based estimates of errors for phases calculated from ... and probably less bias. Acta Cryst. D65, 921-931. Read, R. J. (1986). Improved Fourier coefficients for maps using phases ... Acta Cryst. A42, 140-149. Terwilliger, T. C., Grosse-Kunstleve, R. W., Afonine, P. V., Moriarty, N. W., Zwart, P. ...
     [more results from section 18.11.4 in volume F]

Noncrystallographic symmetry (NCS)
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. and Zwart, P.H.  International Tables for Crystallography (2012). Vol. F, Section 18.11.3.3, pp. 540-541 [ doi:10.1107/97809553602060000865 ]
Noncrystallographic symmetry (NCS) 18.11.3.3. Noncrystallographic symmetry (NCS) Noncrystallographic symmetry is an important feature of many macromolecular crystals that can be used to greatly improve electron-density maps. PHENIX has tools for the identification of NCS and for using NCS and multiple crystal forms of a macromolecule in phase improvement. Phenix.find_ncs ...
     [more results from section 18.11.3 in volume F]

Analysis of experimental data
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. and Zwart, P.H.  International Tables for Crystallography (2012). Vol. F, Section 18.11.2, p. 540 [ doi:10.1107/97809553602060000865 ]
... laws are present. If a model has been supplied, an R versus R (Lebedev et al., 2006) analysis is carried out. This type ... examples from the PDB. Acta Cryst. D62, 83-95. Morris, R. J., Zwart, P. H., Cohen, S., Fernandez, F. J., ...

Graphical user interface
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. and Zwart, P.H.  International Tables for Crystallography (2012). Vol. F, Section 18.11.1.2, p. 539 [ doi:10.1107/97809553602060000865 ]
... a model pre-loaded. References Afonine, P. V., Grosse-Kunstleve, R. W. & Adams, P. D. (2005). The Phenix refinement framework. ... for molecular graphics. Acta Cryst. D60, 2126-2132. Grosse-Kunstleve, R. W., Afonine, P. V., Sauter, N. K. & Adams, P. D. ... Crystallographic Computing, 5, 69-91. McCoy, A. J., Grosse-Kunstleve, R. W., Adams, P. D., Winn, M. D., Storoni, L. ...
     [more results from section 18.11.1 in volume F]

Conclusions
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. and Zwart, P.H.  International Tables for Crystallography (2012). Vol. F, Section 18.11.8, p. 545 [ doi:10.1107/97809553602060000865 ]
Conclusions 18.11.8. Conclusions Advances in computational methods and algorithms have made it possible to automate the solution of many structures with PHENIX. However, many challenges still exist. In particular, the development of automated methods that can be applied at low resolution (worse than 3.0Ć) remains a priority. In this resolution range ...

powered by swish-e
























































to end of page
to top of page