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Paul D. Adams
Paul D. Adams
Lawrence Berkeley Laboratory & University of California Berkeley
Verified email at lbl.gov - Homepage
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Cited by
Year
PHENIX: a comprehensive Python-based system for macromolecular structure solution
PD Adams, PV Afonine, G Bunkóczi, VB Chen, IW Davis, N Echols, ...
Acta Crystallographica Section D: Biological Crystallography 66 (2), 213-221, 2010
207342010
Crystallography & NMR system: A new software suite for macromolecular structure determination
AT Brünger, PD Adams, GM Clore, WL DeLano, P Gros, ...
Acta Crystallographica Section D: Biological Crystallography 54 (5), 905-921, 1998
204131998
Phaser crystallographic software
AJ McCoy, RW Grosse-Kunstleve, PD Adams, MD Winn, LC Storoni, ...
Journal of applied crystallography 40 (4), 658-674, 2007
184352007
PHENIX: building new software for automated crystallographic structure determination
PD Adams, RW Grosse-Kunstleve, LW Hung, TR Ioerger, AJ McCoy, ...
Acta Crystallographica Section D: Biological Crystallography 58 (11), 1948-1954, 2002
45162002
Towards automated crystallographic structure refinement with phenix. refine
PV Afonine, RW Grosse-Kunstleve, N Echols, JJ Headd, NW Moriarty, ...
Acta Crystallographica Section D: Biological Crystallography 68 (4), 352-367, 2012
43052012
Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix
D Liebschner, PV Afonine, ML Baker, G Bunkóczi, VB Chen, TI Croll, ...
Acta Crystallographica Section D: Structural Biology 75 (10), 861-877, 2019
23672019
MolProbity: More and better reference data for improved all‐atom structure validation
CJ Williams, JJ Headd, NW Moriarty, MG Prisant, LL Videau, LN Deis, ...
Protein Science 27 (1), 293-315, 2018
18282018
Iterative model building, structure refinement and density modification with the PHENIX AutoBuild wizard
TC Terwilliger, RW Grosse-Kunstleve, PV Afonine, NW Moriarty, PH Zwart, ...
Acta Crystallographica Section D: Biological Crystallography 64 (1), 61-69, 2008
14312008
Accurate prediction of protein structures and interactions using a three-track neural network
M Baek, F DiMaio, I Anishchenko, J Dauparas, S Ovchinnikov, GR Lee, ...
Science 373 (6557), 871-876, 2021
13432021
Real-space refinement in PHENIX for cryo-EM and crystallography
PV Afonine, BK Poon, RJ Read, OV Sobolev, TC Terwilliger, ...
Acta Crystallographica Section D: Structural Biology 74 (6), 531-544, 2018
12742018
Structural basis for double-stranded RNA processing by Dicer
IJ MacRae, K Zhou, F Li, A Repic, AN Brooks, WZ Cande, PD Adams, ...
Science 311 (5758), 195-198, 2006
12032006
electronic Ligand Builder and Optimization Workbench (eLBOW): a tool for ligand coordinate and restraint generation
NW Moriarty, RW Grosse-Kunstleve, PD Adams
Acta Crystallographica Section D: Biological Crystallography 65 (10), 1074-1080, 2009
9752009
Decision-making in structure solution using Bayesian estimates of map quality: the PHENIX AutoSol wizard
TC Terwilliger, PD Adams, RJ Read, AJ McCoy, NW Moriarty, ...
Acta Crystallographica Section D: Biological Crystallography 65 (6), 582-601, 2009
8532009
The Phenix software for automated determination of macromolecular structures
PD Adams, PV Afonine, G Bunkóczi, VB Chen, N Echols, JJ Headd, ...
Methods 55 (1), 94-106, 2011
7432011
EMRinger: side chain–directed model and map validation for 3D cryo-electron microscopy
BA Barad, N Echols, RYR Wang, Y Cheng, F DiMaio, PD Adams, ...
Nature methods 12 (10), 943-946, 2015
6212015
Automated structure solution with the PHENIX suite
PH Zwart, PV Afonine, RW Grosse-Kunstleve, LW Hung, TR Ioerger, ...
Structural Proteomics, 419-435, 2008
5272008
Cross-validated maximum likelihood enhances crystallographic simulated annealing refinement
PD Adams, NS Pannu, RJ Read, AT Brünger
Proceedings of the National Academy of Sciences 94 (10), 5018-5023, 1997
5181997
Polder maps: improving OMIT maps by excluding bulk solvent
D Liebschner, PV Afonine, NW Moriarty, BK Poon, OV Sobolev, ...
Acta Crystallographica Section D: Structural Biology 73 (2), 148-157, 2017
4642017
Engineering dynamic pathway regulation using stress-response promoters
RH Dahl, F Zhang, J Alonso-Gutierrez, E Baidoo, TS Batth, ...
Nature biotechnology 31 (11), 1039-1046, 2013
4542013
A new generation of crystallographic validation tools for the protein data bank
RJ Read, PD Adams, WB Arendall III, AT Brunger, P Emsley, RP Joosten, ...
Structure 19 (10), 1395-1412, 2011
4422011
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