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Pavel Afonine
Pavel Afonine
Scientist at LBNL
Verified email at lbl.gov
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Cited by
Year
PHENIX: a comprehensive Python-based system for macromolecular structure solution
Acta Cryst. D 66, 213-221, 2010
204102010
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
42022012
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
21612019
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
14122008
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
11852018
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
8402009
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
7312011
Automated structure solution with the PHENIX suite
PH Zwart, PV Afonine, RW Grosse-Kunstleve, LW Hung, TR Ioerger, ...
Structural Proteomics, 419-435, 2008
5232008
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
4522017
New tools for the analysis and validation of cryo-EM maps and atomic models
PV Afonine, BP Klaholz, NW Moriarty, BK Poon, OV Sobolev, ...
Acta Crystallographica Section D: Structural Biology 74 (9), 814-840, 2018
3842018
Structure of photosystem II and substrate binding at room temperature
ID Young, M Ibrahim, R Chatterjee, S Gul, FD Fuller, S Koroidov, ...
Nature 540 (7633), 453-457, 2016
3292016
The Phenix refinement framework
PV Afonine, RW Grosse-Kunstleve, PD Adams
CCP4 newsletter 42, 2005
3012005
Joint X-ray and neutron refinement with phenix. refine
PV Afonine, M Mustyakimov, RW Grosse-Kunstleve, NW Moriarty, ...
Acta Crystallographica Section D: Biological Crystallography 66 (11), 1153-1163, 2010
2712010
Modelling dynamics in protein crystal structures by ensemble refinement
BT Burnley, PV Afonine, PD Adams, P Gros
Elife 1, e00311, 2012
2302012
A robust bulk-solvent correction and anisotropic scaling procedure
PV Afonine, RW Grosse-Kunstleve, PD Adams
Acta Crystallographica Section D: Biological Crystallography 61 (7), 850-855, 2005
2132005
Use of knowledge-based restraints in phenix. refine to improve macromolecular refinement at low resolution
JJ Headd, N Echols, PV Afonine, RW Grosse-Kunstleve, VB Chen, ...
Acta Crystallographica Section D: Biological Crystallography 68 (4), 381-390, 2012
2122012
Structure and membrane remodeling activity of ESCRT-III helical polymers
J McCullough, AK Clippinger, N Talledge, ML Skowyra, MG Saunders, ...
Science 350 (6267), 1548-1551, 2015
2042015
Iterative-build OMIT maps: map improvement by iterative model building and refinement without model bias
TC Terwilliger, RW Grosse-Kunstleve, PV Afonine, NW Moriarty, ...
Acta Crystallographica Section D: Biological Crystallography 64 (5), 515-524, 2008
1792008
Automated map sharpening by maximization of detail and connectivity
TC Terwilliger, OV Sobolev, PV Afonine, PD Adams
Acta Crystallographica Section D: Structural Biology 74 (6), 545-559, 2018
1622018
Improvement of cryo-EM maps by density modification
TC Terwilliger, SJ Ludtke, RJ Read, PD Adams, PV Afonine
Nature Methods 17 (9), 923-927, 2020
1582020
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