2024-05-15 REL PDBe PDBe PDBe 2016-10-05 2016-10-26 2017-01-18 2024-05-15 National Institutes of Health GM082251 United States Cryo-EM reconstruction of the maedi-visna virus (MVV) strand transfer complex Pye VE Ballandras-Colas A retrovirus, lentivirus, integrase, DNA-binding, Zn-binding, RNAseH fold, hydrolase Ballandras-Colas A Maskell DP Serrao E Locke J Swuec P Jonsson SR Kotecha A Cook NJ Pye VE Taylor IA Andresdottir V Engelman AN Costa A Cherepanov P A supramolecular assembly mediates lentiviral DNA integration. Science US 355 93 95 2017 28059770 doi:10.1126/science.aah7002 1095-9203 0038 SCIEAS 5m0r unknown MVV strand transfer complex MVV strand transfer complex 0 1 2 3 4 intergrase 1 1 Maedi visna virus (strain KV1772) nucleic acid 1 2 3 Visna lentivirus (strain 1514) nucleic acid 1 4 synthetic construct integrase Maedi visna virus (strain KV1772) 0.032368825999999996 16 Escherichia coli LEVO WIENIPLAEEEHNKWHQDAVSLHLEFGIPRTAAEDIVQQCDVCQENKMPSTLRGSNKRGIDHWQVDYTHYEDKIILVWVE TNSGLIYAERVKGETGQEFRVQTMKWYAMFAPKSLQSDNGPAFVAESTQLLMKYLGIEHTTGIPWNPQSQALVERTHQTL KNTLEKLIPMFNAFESALAGTLITLNIKRKGGLGTSPMDIFIFNKEQQRIQQQSKSKQEKIRFCYYRTRKRGHPGEWQGP TQVLWGGDGAIVVKDRGTDRYLVIANKDVKFIPPPKEIQKE P35956 3.4.23.- vDNA, non-transfered strand Visna lentivirus (strain 1514) 0.006456145999999999 2 (DG)(DC)(DT)(DG)(DC)(DG)(DA)(DG)(DA)(DT)(DC)(DC)(DG)(DC)(DT)(DC)(DC)(DG)(DG)(DT) (DG) DNA vDNA-tDNA, transferred strand, joined to a model tDNA Visna lentivirus (strain 1514) 0.015387862999999998 2 (DA)(DA)(DC)(DA)(DC)(DC)(DG)(DG)(DA)(DG)(DC)(DG)(DG)(DA)(DT)(DC)(DT)(DC)(DG)(DC) (DA)(DG)(DT)(DC)(DG)(DA)(DC)(DC)(DA)(DC)(DC)(DC)(DT)(DA)(DA)(DT)(DC)(DA)(DA)(DG) (DT)(DT)(DT)(DT)(DT)(DT)(DG)(DG)(DG)(DG) DNA tDNA synthetic construct 0.0070736 2 (DC)(DC)(DC)(DC)(DA)(DA)(DA)(DA)(DA)(DA)(DC)(DT)(DT)(DG)(DA)(DT)(DT)(DA)(DG)(DG) (DG)(DT)(DG) DNA singleParticle particle 0.3 6.5 1.0 NaCl sodium chloride 3.0 CaCl2 calcium chloride 25.0 Bis-Tris Ted Pella, lacey carbon grids coated with ultrathin carbon COPPER 400 CARBON CONTINUOUS 2.0 GLOW DISCHARGE ETHANE 100 293 FEI VITROBOT MARK IV
To lower salt concentration before plunge-freezing, the grids were blotted for 0.5 s, immediately hydrated with a 4-ul drop of 200 mM NaCl, 3 mM CaCl2 and 25 mM BisTris-HCl pH 6.5 and blotted again for 2.5 s followed by plunging into liquid ethane..
FEI POLARA 300 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 GATAN K2 SUMMIT (4k x 4k) COUNTING 1 722 1.47 1 37021
Initial model was produced with e2initialmodel.py from EMAN2 package using 2D classes of negatively stained particles
 C2 8.2 FSC 0.143 CUT-OFF RELION 1.4 37021 RANDOM ASSIGNMENT RELION 1.4 PROJECTION MATCHING RELION 1.4 emd_4139.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 150 150 150 0 0 0 150 150 150 405.0 405.0 405.0 90.0 90.0 90.0 X Y Z -0.20115614 0.3331452 0.0012151365 0.011176318 2.7 2.7 2.7 0.06 AUTHOR MVV STC reconstruction at 8.6 %u212B resolution. OTHER REAL emd_4139_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 150 150 150 0 0 0 150 150 150 405.0 405.0 405.0 90.0 90.0 90.0 X Y Z -0.016577415 0.09127422 -0.00006572582 0.0049254736 2.7 2.7 2.7 AUTHOR None emd_4139_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 150 150 150 0 0 0 150 150 150 405.0 405.0 405.0 90.0 90.0 90.0 X Y Z -0.01646033 0.08801817 -0.000071765426 0.0048973383 2.7 2.7 2.7 AUTHOR None