REL
2023-11-23
2024-02-13
2024-02-13
Single-Particle Cryo-EM of AAV2 at Various Tilts
0000-0001-6656-6320
Yong Zi
Tan
National University of Singapore
14 Science Drive 4 Singapore
Singapore
Singapore
117543
0000-0001-6656-6320
Yong Zi
Tan
National University of Singapore
14 Science Drive 4 Singapore
Singapore
Singapore
117543
0000-0002-8124-7472
Dmitry
Lyumkis
Salk Institute
10010 N. Torrey Pines Rd.
San Diego
California
United States
92037
Aiyer S
Baldwin PR
Tan SM
Shan Z
Oh J
Mehrani A
Bowman ME
Louie G
Passos DO
Đorđević-Marquardt S
Mietzsch M
Hull JA
Hoshika S
Barad BA
Grotjahn DA
McKenna R
Agbandje-McKenna M
Benner SA
Noel JAP
Wang D
Tan YZ
Lyumkis D
National Institutes of Health (NIH)
U54 AI170855
United States
National Institutes of Health (NIH)
U01 AI136680
United States
National Institutes of Health (NIH)
GM148476
United States
National Institutes of Health (NIH)
GM082946
United States
National Science Foundation (NSF, United States)
MCB 2048095
United States
Other private
Hearst Foundations Developmental Chair
United States
Other private
Margaret T. Morris Foundation
United States
National Research Foundation (NRF, Singapore)
NRF Fellowship A-8001346-00-00
Singapore
Other government
National University of Singapore (PYP Fellowship A-0008405-00-00, A-0008405-01-00)
Singapore
Ministry of Education (MoE, Singapore)
MOE AcRF Tier 1 A-8000037-00-00
Singapore
Ministry of Education (MoE, Singapore)
MOE AcRF Tier 2 A-6100427-01-00
Singapore
Other government
Agency for Science, Technology and Research, Singapore
Singapore
Damon Runyon Cancer Research Foundation
Nadia’s Gift Foundation Innovator Award DRR-65-21
United States
American Cancer Society
PF-21-075-01-CCB
United States
Other government
Cancer Center Support Grant P30 CA01495t
United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)
GM103310
United States
Simons Foundation
SF349247
United States
Other government
NYSTAR
United States
Other government
S10 OD032467
United States
National Science Foundation (NSF, United States)
MCB-1939086
United States
730.4
10.6019/EMPIAR-11791
EMDB
molecule
EMD-36766
EMD-36767
EMD-36768
EMD-36769
EMD-36770
EMD-36771
EMD-36772
Aiyer S
Baldwin PR
Tan SM
Shan Z
Oh J
Mehrani A
Bowman ME
Louie G
Passos DO
Đorđević-Marquardt S
Mietzsch M
Hull JA
Hoshika S
Barad BA
Grotjahn DA
McKenna R
Agbandje-McKenna M
Benner SA
Noel JAP
Wang D
Tan YZ
Lyumkis D
Overcoming resolution attenuation during tilted cryo-EM data collection
Nature communications
Nat Commun
1
15
2024
English
10.1038/s41467-023-44555-7
38195598
Aiyer S
Baldwin PR
Tan SM
Shan Z
Oh J
Mehrani A
Bowman ME
Louie G
Passos DO
Đorđević-Marquardt S
Mietzsch M
Hull JA
Hoshika S
Barad BA
Grotjahn DA
McKenna R
Agbandje-McKenna M
Benner SA
Noel JAP
Wang D
Tan YZ
Lyumkis D
Overcoming Resolution Attenuation During Tilted Cryo-EM Data Collection
bioRxiv
10.1101/2023.07.14.548955
Unaligned multiframe movies of AAV2 collected at various tilts
/data/movies
micrographs - multiframe
MRCS
MRCS
1229
200
1
200
32 BIT FLOAT
3710
1.026
3838
1.026
Movies collected using Titan Krios and K2 summit. Tilt angles of 0, 10, 20, 30, 40, 50 and 60 degrees were collected put into their respective folders. 200 frames were used, pixel size is 1.026 Å/pixel, total dose of 78.0 e-/Å2. Compressed using pbzip2. Gain reference is 17jun01a_01155404_17_3838x3710_norm_0.mrc and needs to be flipped upside down to use.
data/micrographs/T*0/*mrc
data/stack/AAV2-T*0-Polished.star
data/stack
Aligned and dose-weighted micrographs of AAV2 collected at various tilts
/data/micrographs
micrographs - single frame
MRC
MRC
1229
1
32 BIT FLOAT
3710
1.026
3838
1.026
Aligned and dose weighted using UCSF MotionCor2. Tilt angles of 0, 10, 20, 30, 40, 50 and 60 degrees were collected put into their respective folders.
data/micrographs/T*0/*mrc
data/stack/AAV2-T*0-Polished.star
data/stack
Polished and equalized particles of AAV2 collected at various tilts
/data/stack
picked particles - multiframe - processed
MRCS
MRCS
7
7000
1
7000
32 BIT FLOAT
600
1.026
600
1.026
Final particle stack after particle polishing using Relion. The particles are equalized so that there are same number of particles per tilt angle with similar defocus distribution.
data/micrographs/T*0/*mrc
data/stack/AAV2-T*0-Polished.star
data/stack