2024-03-06 REL RCSB RCSB RCSB 2020-02-11 2020-02-19 2020-02-19 2024-03-06 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) R01GM117080 United States National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) R01GM118619 United States National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) R21GM126406 United States Department of Energy (DOE, United States) DE-SC0019600 United States National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) HHSN272201700060C United States Single particle reconstruction of HemQ from Geobacillus based on data acquired in the presence of substantial aberrations Bromberg R Guo Y oxidoreductase, heme-binding Bromberg R Guo Y Borek D Otwinowski Z High-resolution cryo-EM reconstructions in the presence of substantial aberrations Iucrj UK 7 445 452 2020 doi:10.1107/S2052252520002444 2052-2525 Bromberg R Guo Y Borek D Otwinowski Z High-resolution cryo-EM reconstructions in the presence of substantial aberrations Biorxiv US https://www.biorxiv.org/content/10.1101/798280v1.full 2020 2692-8205 EMD-21373 other EM volume
same sample, data acquired with different pixel size
 6vsc FULLOVERLAP HemQ HemQ 0 1 Geobacillus sp. (strain Y412MC52) 0.144 HemQ Geobacillus sp. (strain Y412MC52) Y412MC52 0.028817608999999998 5 Escherichia coli LEVO MSEAAQTLDGWYCLHDFRTIDWSAWKTLPNEEREAAISEFLALVDQWETTESEKQGSHAVYTIVGQKADILFMILRPTLD ELHEIETALNKTKLADYLLPAYSYVSVVELSNYLASGSEDPYQIPEVRRRLYPILPKTNYICFYPMDKRRQGNDNWYMLS MEQRRELMRAHGMTGRKYAGKVTQIITGSVGLDDFEWGVTLFSDDALQFKKLVYEMRFDEVSARFGEFGSFFVGTRLPME NVSSFFHV A0A0E0TGF4 1.11.1.- singleParticle particle 28 7.5 20.0 HEPES
100 mM NaCl
unspecified
 ETHANE 100 277 FEI VITROBOT MARK IV TFS TALOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 50.0 2.7 1.0 3.0 NITROGEN 7.0
The goal of the experiment was to show that it is possible to perform high resolution reconstruction in the presence of higher order aberrations.
GATAN K2 SUMMIT (4k x 4k) COUNTING 3838 3710 1-100 1 257 40.0 90.0
173 movies were used in the reconstruction.
 1 236091 C5 2.6 FSC 0.143 CUT-OFF Custom
There is very strong preferred orientation that generates a number of problems, in addition to high level of aberrations.
129446 RANDOM ASSIGNMENT cisTEM OTHER
Custom software applying weighted correlation coefficients
 100 emd_21376.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 232.96 232.96 232.96 90.0 90.0 90.0 X Y Z -1.4984062 3.8149874 0.008714601 0.110630356 0.91 0.91 0.91 0.75 AUTHOR The pixel spacing corresponds to the detector pixel. The data were collected in superresolution mode so the data pixel is 0.455. 1T0T PDB experimental model OTHER
COOT was crucial as well.
REFMAC RECIPROCAL