2024-07-03 REL PDBj PDBj PDBj 2022-09-29 2023-07-19 2023-07-19 2024-07-03 Japan Agency for Medical Research and Development (AMED) JP18am0101076 Japan Cryo-EM structure of APOBEC3G-Vif complex Kouno T Shibata S Hyun J Kim TG Wolf M Human antiviral protein HIV, ANTIVIRAL PROTEIN Kouno T Shibata S Shigematsu M Hyun J Kim TG Matsuo H Wolf M Structural insights into RNA bridging between HIV-1 Vif and antiviral factor APOBEC3G. Nat Commun UK 14 4037 4037 2023 37419875 doi:10.1038/s41467-023-39796-5 2041-1723 8h0i FULLOVERLAP A3G-VC-RNA complex A3G-VC-RNA complex 0 1 2 3 4 APOVEC3G 1 1 3 Human Immunodeficiency virus 1 Vif 1 2 Homo sapiens RNA 1 4 APOBEC3G Homo sapiens 0.043857266 2 Escherichia coli LEVO GPGHMDPDTFSYNFNNRPILSRRNTVWLCYEVERLDNGTWVKMDQHRGQVYSELKYHPEMRFLSLVSKWKLHRDQEYEVT WYISWSPCTKCARDMATFLQENTHVTLTIFVARLYYFWDPDYQEALRSLAQAGATIKIMNYDEFQHCWSKFVYSQGAPFQ PWDGLDEYSQALSGMLGEILRHSMDPPTFTFNFNNEPWVRGRHETYLCYEVERMHNDTWVKLNQRRGFLANQAPHKHGFL EGRHAELCFLDVIPFWKLDLDQDYRVTCFTSWSPCFSCAQEMAKFISKNKHVSLCIKTARIYDDQGRAQEGLRTLAEAGA KISIMTYSEFKHCWDTFVDHQGAPFQPWDGLDEHSQDLSGRLRAILQNQEN Viral infectivity factor Human immunodeficiency virus 1 0.018354800999999997 4 Escherichia coli LEVO MGSSHHHHHHSQDPMENRWQVMIVWQVDRMRINTWKRLVKHHMYISRKAKDWFYRHHYESTNPKISSEVHIPLGDAKLVI TTYWGLHTGERDWHLGQGVSIEWRKKRYSTQVDPDLADQLIHLHYFDEASEGSQIKPPLPSVRKLTEDRWNK Core binding factor beta Homo sapiens 0.018528727 4 Escherichia coli LEVO MPRVVPDQRSKFENEEFFRKLSRECEIKYTGFRDRPHEERQARFQNACRDGRSEIAFVATGTNLSLQFFPASWQGEQRQT PSREYVDLEREAGKVYLKAPMILNGVCVIWKGWIDLQRLDGMGCLEFDEERAQQEDALAQQAFEEARRRTREFEDR Q13951 RNA (5'-R(*CP*GP*GP*UP*UP*GP*AP*UP*CP*GP*UP*UP*UP*UP*AP*AP*CP*AP*A)-3') synthetic construct 0.006369807 2 CGGUUGAUCGUUUUAACAAA ZINC ION 6.5409e-05 4 ZN CHLORIDE ION 3.5453e-05 2 CL singleParticle particle 8.0 25.0 Tris 150.0 sodium chloride 0.5 TCEP Graphene oxide Quantifoil R1.2/1.3 COPPER PLASMA CLEANING ETHANE-PROPANE 100 277 FEI VITROBOT MARK IV FEI TITAN KRIOS OTHER BRIGHT FIELD FIELD EMISSION GUN 300 1.5 2.4 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN FEI FALCON III (4k x 4k) COUNTING 37.0 1 2831190
ab initio 3D map
 C2 2.8 FSC 0.143 CUT-OFF RELION 907456 MAXIMUM LIKELIHOOD RELION 3.1.3 MAXIMUM LIKELIHOOD RELION 3.1.3 RELION 3.1.3 emd_34412.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 215.04 215.04 215.04 90.0 90.0 90.0 X Y Z -7.1680865 20.789470000000001 0.00000000052769 0.9999998 0.84 0.84 0.84 4.0 AUTHOR 3IR2 A PDB experimental model 6NIL B PDB experimental model 6NIL C PDB experimental model FLEXIBLE FIT REAL emd_34412_msk_1.map emd_34412_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 215.04 215.04 215.04 90.0 90.0 90.0 X Y Z -0.025168885 0.075715855 0.000039249608 0.0035951377 0.84 0.84 0.84 AUTHOR emd_34412_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 215.04 215.04 215.04 90.0 90.0 90.0 X Y Z -0.024617987 0.073588476 0.000037829293 0.0035948248 0.84 0.84 0.84 AUTHOR