2018-12-12 REL RCSB RCSB RCSB 2018-10-26 2018-11-28 2018-12-12 2018-12-12 Single-Molecule 3D Image of Double Complexes of DNA-Nanogold Conjugates (No. 02) Wu H Zhai X Lei D Liu J Yu Y Bie R Ren G Wu H Zhai X Lei D Liu J Yu Y Bie R Ren G An Algorithm for Enhancing the Image Contrast of Electron Tomography. Sci Rep UK 8 16711 16711 2018 30420636 doi:10.1038/s41598-018-34652-9 2045-2322 EMD-9263 associated EM volume Double complexes of 84-base pair double-stranded DNA bound with two 5-nm nanogolds Double complexes of 84-base pair double-stranded DNA bound with two 5-nm nanogolds 0
5-nm nanogold particles were stabilized via exchanging with bis-(p-sulfonatophenyl) phenylphosphine (BSPP). DNA sequences modified with a 5 thiol moiety were PAGE purified. DNA thiolated at the 5 end was re-suspended in buffer (10mM Tris pH 8, 0.5mM EDTA). Nanogold particles and DNA were combined at a stoichiometric ratio of 1:2 in the presence of a reducing agent. Monoconjugates formed were separated by anion exchange HPLC, and the fractions concentrated by an Amicon Ultra spin filter, MW 100,000 (EMD Millipore Corp, Billerica, MA). Twenty microliters of nanogold monoconjugates, each containing complementary strands of DNA, were combined stoichiometrically as determined by absorption at 520 nm and allowed to react overnight at room temperature. The dimers were purified from unreacted monoconjugates by agarose gel electrophoresis.
synthetic construct tomography particle 0.02 7.
1X Dulbeccos phosphate-buffered saline, 2.7 mM KCl, 1.46 mM KH2PO4, 136.9 mM NaCl, and 8.1 mM Na2HPO4
 NEGATIVE Uranyl Formate
The grid was stained with 1% (w/v) uranyl formate by using optimized negative-staining (OpNS) protocol.
 Homemade COPPER 200 CARBON CONTINUOUS GLOW DISCHARGE AIR
5-nm nanogold particles were stabilized via exchanging with bis-(p-sulfonatophenyl) phenylphosphine (BSPP). DNA sequences modified with a 5 thiol moiety were PAGE purified. DNA thiolated at the 5 end was re-suspended in buffer (10mM Tris pH 8, 0.5mM EDTA). Nanogold particles and DNA were combined at a stoichiometric ratio of 1:2 in the presence of a reducing agent. Monoconjugates formed were separated by anion exchange HPLC, and the fractions concentrated by an Amicon Ultra spin filter, MW 100,000 (EMD Millipore Corp, Billerica, MA). Twenty microliters of nanogold monoconjugates, each containing complementary strands of DNA, were combined stoichiometrically as determined by absorption at 520 nm and allowed to react overnight at room temperature. The dimers were purified from unreacted monoconjugates by agarose gel electrophoresis.
NO SECTIONING ZEISS LIBRA120PLUS FLOOD BEAM BRIGHT FIELD LAB6 120 2.2 125000. In-column Omega Filter 20 GATAN ULTRASCAN 4000 (4k x 4k) 4096 4096 56.39 1
X-ray speckles in images were removed before CTF correction.
FOURIER SPACE 17.0 FSC 0.5 CUT-OFF
The 3D reconstruction was performed by using individual-particle electron tomography (IPET). The obtained 3D map was low-pass filtered to 1.6 nm.
81 TOMOCTF emd_9263.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 -150 -150 -150 300 300 300 846.0 846.0 846.0 90.0 90.0 90.0 X Y Z -0.7337531 2.4673674 0.00047742535 0.032392304 2.82 2.82 2.82 AUTHOR Double Complexes of DNA-Nanogold Conjugates (No. 02)