2024-11-06 REL PDBe PDBe PDBe 2020-10-29 2021-08-25 2021-08-25 2024-11-06 Biotechnology and Biological Sciences Research Council (BBSRC) BBS/E/J/000PR9794 United Kingdom Biotechnology and Biological Sciences Research Council (BBSRC) BB/L014130/1 United Kingdom John Innes Foundation None United Kingdom Nudaurelia capensis omega virus procapsid: virus-like particles expressed in Nicotiana benthamiana Castells-Graells R Ribeiro JRS ICOSAHEDRAL VIRUS, AUTO-CATALYTIC CLEAVAGE, VIRUS MATURATION, TRANSIENT EXPRESSION, VIRUS LIKE PARTICLE Castells-Graells R Ribeiro JRS Domitrovic T Hesketh EL Scarff CA Johnson JE Ranson NA Lawson DM Lomonossoff GP Plant-expressed virus-like particles reveal the intricate maturation process of a eukaryotic virus. Commun Biol UK 4 619 619 2021 34031522 doi:10.1038/s42003-021-02134-w 2399-3642 7ata FULLOVERLAP Nudaurelia capensis omega virus Nudaurelia capensis omega virus 0 1
The codon-optimized sequence was transiently expressed in Nicotiana benthamiana
Nudaurelia capensis omega virus Gonimbrasia cytherea 16.76 coat 480.0 4 VIRUS-LIKE PARTICLE OTHER false false p70 Nudaurelia capensis omega virus 0.062094828 4 Nicotiana benthamiana LEVO MDSNSASGKRRSRNVRIAANTVNVAPKQRQARGRRARSRANNIDNVTAAAQELGQSLDANVITFPTNVATMPEFRSWARG KLDIDQDSIGWYFKYLDPAGATESARAVGEYSKIPDGLVKFSVDAEIREIYNEECPTVSDASIPLDGAQWSLSIISYPMF RTAYFAVANVDNKEISLDVTNDLIVWLNNLASWRDVVDSGQWFTFSDDPTWFVRIRVLHPTYDLPDPTEGLLRTVSDYRL TYKSITCEANMPTLVDQGFWIGGHYALTPIATTQNAVEGSGFVHPFNVTRPGIAAGVTLTWASMPPGGSAPSGDPAWIPD STTQFQWRHGGFDAPTGVITYTIPRGYTMQYFDTTTNEWNGFANPDDVVTFGQTGGAAGTNATITITAPTVTLTILATTT SAANVINFRNLDAETTAASNRSEVPLPPLTFGQTAPNNPKIEQTLVKDTLGSYLVHSKMRNPVFQLTPASSFGAISFTNP GFDRNLDLPGFGGIRDSLDVNMSTAVCHFRSLSKSCSIVTKTYQGWEGVTNVNTPFGQFAHSGLLKNDEILCLADDLATR LTGVYGATDN Q4TVS9 p70 Nudaurelia capensis omega virus 0.007815101999999999 4 Nicotiana benthamiana LEVO FAAAVLAFAANMLTSVLKSEATTSVIKELGNQATGLANQGLARLPGLLASIPGKIAARVRARRDRRRAARMNNN Q4TVS9 singleParticle particle 0.3 7.6 COPPER GLOW DISCHARGE ETHANE FEI VITROBOT MARK IV FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 70.0 2.7 0.7000000000000001 2.7 75000.0 NITROGEN FEI FALCON III (4k x 4k) INTEGRATING 1 8554 1.5 72.0 1 6ANM I 6.63 FSC 0.143 CUT-OFF RELION 3.1 5426 MAXIMUM LIKELIHOOD RELION 3.1 MAXIMUM LIKELIHOOD RELION 3.1 RELION 3.1 emd_11911.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 225 225 225 38 38 38 225 225 225 479.25003 479.25003 479.25003 90.0 90.0 90.0 Z Y X -0.063345045 0.108826414 -0.000000000000108 0.009031488 2.13 2.13 2.13 0.007 AUTHOR Density improved map from phenix.resolve_cryo_em at 6.63 Ang resolution 7ANM PDB experimental model OTHER
The model was built and refined against a density modified map generated using phenix.resolve_cryo_em. This used the Relion half maps as inputs and improved the resolution to 6.6 Angstrom.
Correlation coefficient REAL 105.799999999999997 emd_11911_msk_1.map emd_11911_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 639.00006 639.00006 639.00006 90.0 90.0 90.0 X Y Z -0.034437735 0.070338316 0.00092380034 0.009104381 2.13 2.13 2.13 AUTHOR Postprocessed map from Relion at 7.1 Ang resolution emd_11911_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 639.00006 639.00006 639.00006 90.0 90.0 90.0 X Y Z -0.01794211 0.0476437 0.0009074645 0.007855494 2.13 2.13 2.13 AUTHOR Refine3D half map 1 from Relion at 7.52 Ang resolution emd_11911_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 639.00006 639.00006 639.00006 90.0 90.0 90.0 X Y Z -0.018359214 0.04793158 0.0009401362 0.00787254 2.13 2.13 2.13 AUTHOR Refine3D half map 2 from Relion at 7.52 Ang resolution