2026-02-25 REL RCSB INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY RCSB RCSB 2025-02-18 2026-02-25 2026-02-25 2026-02-25 Department of Energy (DOE, United States) DE-AC02-05CH11231 United States National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI) R01HL115153 United States National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) R01GM104427 United States National Institutes of Health/National Institute of Mental Health (NIH/NIMH) R01MH077303 United States National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK) R01DK042667 United States A non-averaged 3D density map of an individual particle, with a 2D lattice formed by octahedral DNA origami and ferritin, was revealed by individual particle cryo-electron tomography (Arm #11 of Particle #001). Liu J Ren G Non-averaged structure, individual particle cryo-electron tomography, IPET, cryo-ET, structural flexibility, DNA origami, 2D lattice, DNA-protein lattice., DNA Liu J Zhang M Wang S Hu Z Wu H Gang O Ren G Non-averaged 3D structure of low-ordered 2D lattice revealed by individual-particle cryo-electron tomography To Be Published 0353 EMDB EMD-49285 associated EM volume 2D lattice of octahedral DNA origami with 100% loaded ferritin 2D lattice of octahedral DNA origami with 100% loaded ferritin 0
The octahedral DNA origami was folded by mixing 20 nM of M13mp18 scaffold DNA with 100 nM of each staple oligonucleotide in TAE buffer containing 12.5 mM MgCl2. The mixed solution was then slowly cooled down and purified. Subsequently, the octahedral DNA origami was combined with ferritin in TAE/MgCl2 buffer, and the mixed solution was slowly cooled to room temperature.
synthetic construct tomography twoDArray 8.6 40.0 Tris 20.0 Acetate 1.0 EDTA 12.5 MgCl2 Magnesium dichloride ETHANE 90 277 LEICA EM GP
The octahedral DNA origami was folded by mixing 20 nM of M13mp18 scaffold DNA and 100 nM of each staple oligonucleotide in TAE buffer containing 12.5 mM MgCl2. The mixed solution was slowly cooled down and purified. The octahedral DNA origami was mixed with ferritin in TAE/MgCl2 buffer, then the mixed solution was slowly cooled to room temperature.
NO SECTIONING TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.7 2.0 2.0 53000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 79.0 80.0 GATAN K3 BIOQUANTUM (6k x 4k) 1 35 2.2 6.6 1
Motion correction of the multi-frame movie was conducted using MotionCor2. The tilt series of whole micrographs were initially aligned with IMOD. Additionally, to reduce image noise, the tilt series underwent further processing with a machine learning approach, a median filter process, and a contrast enhancement method.
BACK PROJECTION 20.0 OTHER IPET
FSC and details determined the resolution in the map.
35 Gctf TOMOCTF
The Contrast Transfer Function (CTF) was determined by Gctf and then corrected by TOMOCTF.
PHASE FLIPPING AND AMPLITUDE CORRECTION emd_49285.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 -128 -128 -128 256 256 256 373.76 373.76 373.76 90.0 90.0 90.0 X Y Z -0.14840841 0.26609117 0.0007580002 0.011687667 1.46 1.46 1.46 AUTHOR