2024-12-18 REL PDBe PDBe PDBe 2024-11-29 2024-12-18 2024-12-18 2024-12-18 German Research Foundation (DFG) 240245660 - SFB 1129 (project 5 HGK, project 6 BM, project 931 21 JAGB) Germany German Research Foundation (DFG) DFG KR 906/7-1 (HGK) Germany National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) T32 AI055403 United States Max Planck Society Germany Mature HIV-1 matrix from WT virus particle Stacey JCV Hrebik D Briggs JAG HIV-1, HIV, matrix, mature, spacer peptide 2, SP2, VIRAL PROTEIN Stacey JCV Hrebik D Nand E Shetty SD Qu K Boicu M Anders-Osswein M Dick RA Mothes W Krausslich HG Muller B Briggs JAG The conserved HIV-1 spacer peptide 2 triggers matrix lattice maturation. Biorxiv US 2024 39574591 doi:10.1101/2024.11.06.622200 2692-8205 EMD-51769 consensus EM volume
higher resolution mature HIV-1 matrix structure from the HIV-1 MA-SP1 cleavage mutant
 HIV-1 vector pNL4-3 Human immunodeficiency virus 1 0 1 2
HEK293T cells were transfected with pcHIV which was expressed and purified.
Human immunodeficiency virus 1 Homo sapiens 17 Gag 1200.0 VIRUS-LIKE PARTICLE STRAIN true false HIV-1 mature matrix 1 1 2
HIV-1 mature matrix in a complex with SP2
Human immunodeficiency virus 1 Gag polyprotein Human immunodeficiency virus 1
HIV-1 matrix
Homo sapiens LEVO GARASVLSGGELDKWEKIRLRPGGKKQYKLKHIVWASRELERFAVNPGLLETSEGCRQILGQLQPSLQTGSEELRSLYNTIAVLYCVHQRIDVKDTKEALDKIEEEQNKSKKKAQQAAADTGNNSQVSQNY P12493 Gag polyprotein Human immunodeficiency virus 1 Homo sapiens LEVO FLGKIWPSHKGRPGNF P12493 singleParticle particle 7.4 8.1 Na2HPO4 disodium hydrogen phosphate 1.5 KH2PO4 potassium dihydrogen phosphate 137.0 NaCl sodium chloride 2.7 KCl potassium chloride
PBS
 Quantifoil R2/2 COPPER 300 CARBON HOLEY 50.0 GLOW DISCHARGE AIR ETHANE-PROPANE 100 293 LEICA EM GP
purified pCHIV WT particles in PBS
 TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 0.6 0.45 2.6 4.2 130000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 88.0 93.0 TFS Selectris 15 FEI FALCON IV (4k x 4k) 4096 4096 1 19530 4.0 40.0
EER mode
 1 5801053
A new model was trained in crYOLO using a training dataset annotated in a randomly selected set of 50-100 micrographs. Annotation was performed in the crYOLO boxmanager GUI placing positions all over the visible surface of an HIV virus particle. The picks did not distinguish individual proteins or membranes.
 EMD-13088 1 C3 EXACT BACK PROJECTION 3.83 FSC 0.143 CUT-OFF cryoSPARC 4.3 898502 MAXIMUM LIKELIHOOD cryoSPARC 4.3 MAXIMUM LIKELIHOOD cryoSPARC 4.3 8 72032.0 cryoSPARC 4.3
particles were symmetry expanded and moved to their neighbouring symmetry centres to increase the number of particles after classification
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