2017-08-30 REL PDBe PDBe PDBe 2016-11-10 2016-12-28 2016-12-28 2017-08-30 The structure of the mature HIV-1 CA hexameric lattice with curvature parameters: tilt=23, twist=6 Mattei S Glass B Hagen WJH Kraeusslich H-G Briggs JAG Mattei S Glass B Hagen WJ Krausslich HG Briggs JA The structure and flexibility of conical HIV-1 capsids determined within intact virions. Science US 354 1434 1437 2016 27980210 doi:10.1126/science.aah4972 1095-9203 0038 SCIEAS EMD-3482 associated EM volume
The structure of the mature HIV-1 CA hexameric lattice with curvature parameters: tilt=23, twist=6
 5mdd FULLOVERLAP Human immunodeficiency virus 1 Human immunodeficiency virus 1 0 1 2
HIV-1 particles were produced by infection of MT-4 cells with HIV-1 strain NL43 by coculture.
Human immunodeficiency virus 1 Homo sapiens VIRION STRAIN true false Gag protein Human immunodeficiency virus 1 0.008370568 8 LEVO TSILDIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNWMTETLLVQNANPDCKTILKALGPGATLEEMMTACQGV Gag protein Human immunodeficiency virus 1 0.016301689 6 LEVO PIVQNLQGQMVHQAISPRTLNAWVKVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEW DRLHPVHAGPIAPGQMREPRGSDIAGTTSTLQEQIGWMTHNPPIPVGEIYKRWIILGLNKIVRMYSP subtomogramAveraging particle 7.4 PBS C-flat COPPER 300 CARBON HOLEY GLOW DISCHARGE AIR ETHANE 100 292 FEI VITROBOT MARK II
10nm colloidal gold was added to the sample prior to plunge freezing.
Viral particles were purified from cell culture supernatant by iodixanol gradient centrifugation.
 FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 2.0 6.5 81000. FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GIF Quantum LS 0 20
Nanoprobe
GATAN K2 QUANTUM (4k x 4k) SUPER-RESOLUTION 3710 3838 1 2.2 1
Frames were aligned using MotionCorr. Tilts in a tilt series were exposure filtered for cumulative electron dose. Tomograms were reconstructed using IMOD.
1 C1 8.5 FSC 0.143 CUT-OFF AV3 TOM Toolbox
The final reconstruction is obtained by averaging, without further alignment, subtomograms that were selected based on the local curvature of the hexameric lattice. This reconstruction has hexamer-hexamer curvature parameters: tilt=23, twist=6.
12211 103 652618 reference free
Subtomograms were extracted along the manually rendered core surface of each viral particle.
 IMOD
CTF correction was performed using the ctfphaseflip program in IMOD prior to backprojection.
 OTHER AV3 TOM Toolbox
Cross-correlation based template matching.
 emd_3482.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 160 160 160 0 0 0 160 160 160 284.8 284.8 284.8 90.0 90.0 90.0 X Y Z -0.30838963 0.5469737 0.00013600333 0.048028905 1.78 1.78 1.78 0.2 AUTHOR The structure of the mature HIV-1 CA hexameric lattice with curvature parameters: tilt=23, twist=6 RIGID BODY FIT Cross-correlation coefficient REAL