2025-04-16 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY SOURCE_AND_TAXONOMY citation citation_author em_admin em_entity_assembly em_entity_assembly_naturalsource em_entity_assembly_recombinant em_virus_natural_host entity_src_gen _citation.country _citation.journal_abbrev _citation.journal_id_ASTM _citation.journal_id_CSD _citation.journal_id_ISSN _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year _em_admin.last_update _em_entity_assembly.entity_id_list PDBe PDBe 2024-12-03 2024-12-18 2024-12-18 2025-04-16 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 Immature HIV-1 matrix Stacey JCV Hrebik D Briggs JAG HIV-1, HIV, matrix, immature, VIRAL PROTEIN Stacey JCV Hrebik D Nand E Shetty SD Qu K Boicu M Anders-Osswein M Uchil PD Dick RA Mothes W Krausslich HG Muller B Briggs JAG The conserved HIV-1 spacer peptide 2 triggers matrix lattice maturation. Nature UK 640 258 264 2025 40011770 doi:10.1038/s41586-025-08624-9 1476-4687 0006 NATUAS EMD-51769 other EM volume
mature matrix structure from HIV-1 MA-SP1 mutant
 HIV-1 vector pNL4-3 HIV-1 vector pNL4-3 0 1
HEK293T cells were transfected with pcHIV with inactive viral protease which was expressed and purified.
HIV-1 vector pNL4-3 Homo sapiens 0.014 Gag 1200.0 VIRUS-LIKE PARTICLE STRAIN true false HIV-1 immature matrix 1 1
HIV-1 immature matrix as a part of the Gag polypeptide
 Gag polyprotein Human immunodeficiency virus 1
HIV matrix
Homo sapiens LEVO GARASVLSGGELDKWEKIRLRPGGKKQYKLKHIVWASRELERFAVNPGLLETSEGCRQILGQLQPSLQTGSEELRSLYNT IAVLYCVHQRIDVKDTKEALDKIEEEQNKSKKKAQQAAADTGNNSQVSQNY 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 HIV-1 PR- particles in PBS
 TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 0.6 0.45 3.6 4.1 130000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 88.0 93.0 TFS Selectris 15 FEI FALCON IV (4k x 4k) 4096 4096 1 9942 4.0 40.0
EER mode
 1 3568755
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-13087 1 C3 EXACT BACK PROJECTION 5.83 FSC 0.143 CUT-OFF cryoSPARC 4.3 174245 MAXIMUM LIKELIHOOD cryoSPARC 4.3 MAXIMUM LIKELIHOOD cryoSPARC 4.3 10 91209.0 cryoSPARC 4.3
3D classification without alignment in cryosparc
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