REL 2013-10-25 2013-12-04 2016-01-19 Yifan Cheng University of California San Francisco San Francisco United States 94158-2517 Yifan Cheng University of California San Francisco San Francisco United States 94158-2517 Liao M Cao E Julius D Cheng Y 1 2015-07-13 REL

Added two datasets - raw multi-frame micrographs and summed-frame micrographs

2 2015-12-04 REL

Corrected the resolution of "TRPV1 raw multi-frame micrographs" image set to be 0.6078 ‎Å instead of 1.2156 ‎Å

3 2016-01-18 REL

Added picked_coordinates directory to micrographs

4 2016-01-19 REL

Moved picked_coordinates directory so that it is under micrographs/summed_frames and updated annotation for picked coordinates

6.3 10.6019/EMPIAR-10005 EMDB EMD-5778 TRPV1 picked particles /data/particles tilt series MRC MRC 35645 30 3 16 32 BIT FLOAT 256 1.2156 256 1.2156

(1) "tv1_f01-30.mrc" contains the particles from summing frame 1 to 30. "tv1_f03-16.mrc" contains the particles from summing frame 3 to 16. All particles are boxed after motion correction. The particles are normalized (mean=0, standard deviation=1), and also contrast-inverted (white particles with black ground). "tv1_relion_data.star" is the final output of RELION auto-refine, containing all particle information. (2) 30 particle stacks in MRC format, named as "f01.mrc", "f02.mrc", etc., store all frames of all particles. For example, "f01.mrc" contains the 1st frame of each particle, and "f02.mrc" contains the 2nd frame of each particle. These particles are boxed after motion-correction, and a direct sum should generate particles as those in "tv1_f01-30.mrc", except that the particles in "f??.mrc" are not normalized and are in original contrast (black particle with white background).

TRPV1 raw multi-frame micrographs /data/micrographs/movie_frames micrographs - multiframe MRC MRC 966 30 32 BIT FLOAT 3710 0.6078 3710 0.6078

These files are named stack_0001.mrc -> stack_0966.mrc

TRPV1 summed frame micrographs /data/micrographs/summed_frames micrographs - single frame MRC MRC 966 1 32 BIT FLOAT 3710 1.2156 3710 1.2156

These files are named stack_0001_2x_SumCorr.mrc -> stack_0966_2x_SumCorr.mrc The picked particle coordinates can be found in: micrographs/summed_frames/picked_coordinates They correspond to 3x binned images, so the values need to be multiplied by 3 to correspond to the unbinned image. The TRPV1_coords_88915 folder reflects the initial particles that were selected for further processing. The TRPV1_coords_35645 one relates to the final particles used to obtain the high-resolution map (meaning: we initially extracted 88915 particles, then post 2d and 3d classification we proceeded to minimize the stack by subselecting the final group of particles from “star” files -> the 35645 particles).