2018-10-10 REL PDBe PDBe PDBe 2018-07-31 2018-09-05 2018-09-26 2018-10-10 Mature CA domain pentamer from HIV-1 CA-SP1 Gag proteolytic cleavage mutant virus particles Mattei S Tan AWK Glass B Mueller B Kraeusslich HG Briggs JAG Mattei S Tan A Glass B Muller B Krausslich HG Briggs JAG High-resolution structures of HIV-1 Gag cleavage mutants determine structural switch for virus maturation. Proc. Natl. Acad. Sci. U.S.A. US 115 E9401 E9410 2018 30217893 doi:10.1073/pnas.1811237115 1091-6490 0040 PNASA6 EMD-0171 associated EM volume Human immunodeficiency virus 1 Human immunodeficiency virus 1 0 1 Human immunodeficiency virus 1 Homo sapiens Homo sapiens HEK293T pCHIV VIRION STRAIN true false Gag polyprotein Homo sapiens LEVO MGARASVLSGGELDRWEKIRLRPGGKKKYKLKHIVWASRELERFAVNPGLLETSEGCRQI LGQLQPSLQTGSEELRSLYNTVATLYCVHQRIEIKDTKEALDKIEEEQNKSKKKAQQAAA DTGHSNQVSQNYPIVQNIQGQMVHQAISPRTLNAWVKVVEEKAFSPEVIPMFSALSEGAT PQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRVHPVHAGPIAPGQMREPRGSDIAGTT STLQEQIGWMTNNPPIPVGEIYKRWIILGLNKIVRMYSPTSILDIRQGPKEPFRDYVDRF YKTLRAEQASQEVKNWMTETLLVQNANPDCKTILKALGPAATLEEMMTACQGVGGPGHKA RVIAEAISQVTNSATIMMQRGNFRNQRKIVKCFNCGKEGHTARNCRAPRKKGCWKCGKEG HQMKDCTERQANFLGKIWPSYKGRPGNFLQSRPEPTAPPEESFRSGVETTTPPQKQEPID KELYPLTSLRSLFGNDPSSQ subtomogramAveraging particle 7.4 C-flat-2/2 COPPER 300 CARBON HOLEY GLOW DISCHARGE AIR
The grid was glow discharged with a current of 20 mA
 ETHANE 100 288.15 FEI VITROBOT MARK II
FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 70.0 2.7 2.0 4.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GIF Quantum LS 20 GATAN K2 QUANTUM (4k x 4k) SUPER-RESOLUTION 1-5 2.4 1
Images were collected in super-resolution mode and Fourier cropped to 3708 by 3708 pixels in SerialEM
C5 24.0 FSC 0.5 CUT-OFF AV3 TOM Toolbox
All subtomograms were averaged to obtain a single map, and resolution was measured by cross FSC using the 0.5 FSC criterion against an equivalent reconstruction of the wild-type mature CA pentamer.
11 9 11 Extraction points picked by geometric analysis of mature hexameric lattice AV3 TOM Toolbox MATLAB
The arrangement of aligned, mature CA-SP1 hexamer positions was analysed in MATLAB to identify pentameric points in the curved hexameric lattice.
 CTFFIND 4 CTFPHASEFLIP NOVACTF
CTF correction was initially performed by phase-flipping using CTFFIND4, and these tomograms were used for subtomogram alignment. The final reconstruction was generated from tomograms CTF corrected by CTF multiplication with astigmatism correction using novaCTF (Turonova et al, 2017).
 OTHER AV3 TOM Toolbox emd_0171.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 64 64 64 0 0 0 64 64 64 345.6 345.6 345.6 90.0 90.0 90.0 X Y Z -4.40884 3.3334 -0.000000000012647 0.6049156 5.4 5.4 5.4 0.912 AUTHOR Structure of the mature CA domain pentamer from HIV-1 CA-SP1 Gag proteolytic cleavage mutant virus particles