2018-10-31 REL RCSB RCSB RCSB 2018-10-18 2018-10-31 2018-10-31 2018-10-31 T20S proteasome Eng ET Kopylov M Jordan KJ Rice WJ Carragher BO Potter CS Eng ET Kopylov M Rice WJ Carragher BO Potter CS T20S proteasome To Be Published 0353 EMD-9233 associated EM volume 20S proteasome 20S proteasome 0 Thermoplasma acidophilum Escherichia coli BL21(DE3) pREAR-A 0.7 singleParticle particle 0.21 7.4 150.0 NaCl sodium chloride 20.0 C4H11NO3 Tris
20 mM Tris, 150 mM NaCl
 C-flat-1.2/1.3 4C COPPER 400 CARBON HOLEY ARRAY GLOW DISCHARGE OTHER ETHANE 75 298 GATAN CRYOPLUNGE 3
Blotted for 2.5 seconds after a 30 second wait time..
1.2/1.3 C-Flat grid, plasma cleaned
 FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 70.0 2.7 1.0 0.2 3.0 3.02 37000. 75574. FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 70.0 70.0
Leginon
GATAN K2 SUMMIT (4k x 4k) COUNTING 3710 3838 5.0 1-50 1 1173 6.259 62.59
Images were collected in movie mode at 5 frames per second.
 1
Images were automatically run through MotionCor2 by Appion on-the-fly with the aligned sum and aligned dose-weighted sum saved.
172896
Template picking by FindEM. Templates were created from Appion DoG picks from the first 50 images, which were subjected to 2D classification in RELION.
 CTFFIND 4
CTF amplitude correction was performed following 3D reconstruction.
 Ab initio model created by cryoSPARC 1 D7 BACK PROJECTION 2.1 FSC 0.143 CUT-OFF RELION 3 127570 MAXIMUM LIKELIHOOD RELION 3 MAXIMUM LIKELIHOOD RELION 3 3 RELION 3
3D classification used K=3 and 1 out of the 3 classes were chosen for the final refinement.
 emd_9233.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 400 400 400 0 0 0 400 400 400 264.63998 264.63998 264.63998 90.0 90.0 90.0 X Y Z -0.08436498 0.14498375 0.00018564082 0.004726364 0.66159993 0.66159993 0.66159993 0.02 AUTHOR T20S sharpened masked map emd_9233_msk_1.map emd_9233_additional.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 400 400 400 0 0 0 400 400 400 264.63998 264.63998 264.63998 90.0 90.0 90.0 X Y Z -0.013078006 0.036220316 -0.000019199197 0.0017852507 0.66159993 0.66159993 0.66159993 0.00819 AUTHOR T20S unsharpened map emd_9233_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 400 400 400 0 0 0 400 400 400 264.63998 264.63998 264.63998 90.0 90.0 90.0 X Y Z -0.017693391 0.0427809 -0.000017613713 0.0022632568 0.66159993 0.66159993 0.66159993 0.00851 AUTHOR T20S odd half map emd_9233_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 400 400 400 0 0 0 400 400 400 264.63998 264.63998 264.63998 90.0 90.0 90.0 X Y Z -0.019708017 0.04174736 -0.000017488248 0.0022618049 0.66159993 0.66159993 0.66159993 0.00864 AUTHOR T20S even half map