2020-01-29 REL RCSB RCSB RCSB 2016-01-14 2016-07-13 2016-11-02 2020-01-29 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) R01GM104427 United States Department of Energy (DOE, United States) DE-AC02-05CH11231 United States Electron tomographic structure of a human plasma VLDL particle in complex with monoclonal antibody mAB012 (No.006) Yu Y Kuang Y Lei D Zhai X Krauss R Ren G Yu Y Kuang YL Lei D Zhai X Zhang M Krauss RM Ren G Polyhedral 3D structure of human plasma very low density lipoproteins by individual particle cryo-electron tomography. J.Lipid Res. US 57 1879 1888 2016 27538822 doi:10.1194/jlr.M070375 0022-2275 0484 JLPRAW EMD-8053 associated EM volume EMD-8042 other EM volume EMD-8043 other EM volume EMD-8044 other EM volume EMD-8045 other EM volume EMD-8046 other EM volume EMD-8047 other EM volume EMD-8048 other EM volume EMD-8049 other EM volume EMD-8050 other EM volume EMD-8051 other EM volume EMD-8052 other EM volume VLDL in complex with antibody mAB012 VLDL in complex with antibody mAB012 0
VLDL was isolated from human plasma by density gradient centrifugation. mAB012 was purchased from EMD Millipore. The monoclonal IgG antibody was designed to recognize the first 10 amino acid residues of apoB-100. IgG fraction was purified from mouse ascites by DEAE column chromatography. Equimolar VLDL and mAB012 were mixed and kept at 4 degC overnight to prepare the complexes.
Homo sapiens blood 7.0 human plasma VLDL 1
VLDL was isolated from human plasma by density gradient centrifugation.
Homo sapiens blood 7.0 Monoclonal IgG antibody mAB012 1
mAB012 was purchased from EMD Millipore. The monoclonal IgG antibody was designed to recognize the first 10 amino acid residues of apoB-100. IgG fraction was purified from mouse ascites by DEAE column chromatography.
Mus musculus ascites Mus musculus 0.160 tomography particle 0.4 7.3 8.0 NaCl sodium chloride 0.2 KCl potassium chloride 1.15 Na2HPO4 Sodium Phosphate, dibasic 0.2 KH2PO4 Potassium Phosphate, monobasic
DPBS
 EMS Lacey carbon COPPER 200 CARBON LACEY 50.0 GLOW DISCHARGE AIR 0.039 ETHANE 90 277 LEICA EM GP
3 microliter of specimen blotted for 3 seconds before plunging.
This sample was monodisperse.
NA NO SECTIONING ZEISS LIBRA120PLUS FLOOD BEAM BRIGHT FIELD LAB6 120 75.0 2.2 1.5 1.5 2.5 2.5 50000.0 50000.0 GATAN 626 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER NITROGEN 90.0 93.0 Zeiss in-column Omega 0 20 GATAN ULTRASCAN 4000 (4k x 4k) 2048 2048 30.0 1 85 0.5 1.0
Images were collected by using the Gatan Tomography module of Digital Micrograph. XY tracking and focusing were done manually.
 1
Defects in images such as bad pixels and X-rays were removed prior to alignment and 3D reconstruction.
BACK PROJECTION 80.0 FSC 0.5 CUT-OFF IPET
The 3D reconstruction was conducted by using Individual Particle Electron Tomography (IPET)
85 TOMOCTF V. October 2012 emd_8053.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 160 160 160 -80 -80 -80 160 160 160 768.0 768.0 768.0 90.0 90.0 90.0 X Y Z -0.071101286 0.17117628 -0.0009744772 0.01751323 4.8 4.8 4.8 AUTHOR human plasma VLDL particle in complex with monoclonal antibody mAB012