Recent developments in the PHENIX software for automated crystallographic structure determination.
By Paul D. Adams, K. Gopal, R. Grosse-Kunstleve, Li-Wei Hung, Thomas R. Ioerger, A. McCoy, Nigel W. Moriarty, Reetal Pai, Randy J. Read, T. Romo and 4 more. 2004
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- Paul D. Adams
- M. Cymborowski
- Guang Tang
- Wladek Minor
- Wen Jiang
- Pavel V. Afonine
- Philip Baldwin
- Ian Rees
Citations in the corpus
- Phaser crystallographic software (2007, methodology): “Phaser source code has been distributed directly by the authors (see http://www-structmed.cimr.cam.ac.uk/phaser for details) and through the PHENIX and CCP4 (Collaborative Computing Project, Number 4, 1994) software suites.”
- HKL-3000: the integration of data reduction and structure solution--from diffraction images to an initial model in minutes. (2006, background): “The most popular or promising packages include AUTOSHARP (de La Fortelle & Bricogne, 1997; Vonrhein et al., 2006), ACrS (Brunzelle et al., 2003), SGXPro (Fu et al., 2005), ELVES (Holton & Alber, 2004), Auto-Rickshaw (Panjikar et al., 2005), PHENIX (Adams et al., 2004) and HKL2MAP (Pape & Schneider, ”
- A general method for phasing novel complex RNA crystal structures without heavy-atom derivatives (2008, methodology): “Molecular replacement was carried out using the program Phaser distributed with the CCP4 (Collaborative Computational Project, Number 4, 1994; Winn, 2003) and PHENIX (Adams et al., 2002, 2004) packages.”
- EMAN2: an extensible image processing suite for electron microscopy. (2007, methodology): “When we began to work with the PHE- NIX (Adams et al., 2004, 2002) project to produce SPARX (see the companion piece in this issue), it became clear that many features necessary to take the next steps towards higher resolution reconstructions and development of novel techniques could not be reasonab”
- SPARX, a new environment for Cryo-EM image processing. (2007, methodology): “This same approach has been used successfully in the PHENIX software suite for automated crystallographic structure determination (Adams et al., 2002, 2004).”