2018-07-18 REL RCSB RCSB RCSB 2016-08-02 2016-10-05 2016-10-12 2018-07-18 CryoEM structure of a beak and feather disease virus-like particle encapsidating ssDNA Hardy JM Sarker S Radjainia M Raidal SR Forwood JK Coulibaly F Sarker S Terron MC Khandokar Y Aragao D Hardy JM Radjainia M Jimenez-Zaragoza M de Pablo PJ Coulibaly F Luque D Raidal SR Forwood JK Structural insights into the assembly and regulation of distinct viral capsid complexes. Nat Commun UK 7 13014 13014 2016 27698405 doi:10.1038/ncomms13014 2041-1723 EMD-8306 associated EM volume Beak and feather disease virus Beak and feather disease virus 0 1 2
Recombinant protein complex bound to ssDNA in an icosahedral arrangement
Beak and feather disease virus Cacatua leadbeateri Escherichia coli BL21(DE3) Rosetta 2 pMCSG21 2.595 Capsid 170.0 1 VIRUS-LIKE PARTICLE SPECIES false false 42mer ssDNA 1 2
The difference map produced by subtracting the crystal structure of the protein component (PDB: 5J37) from the cryoEM map
Beak and feather disease virus 0.784 Cap protein 1 1
Icosahedral capsid
Beak and feather disease virus Escherichia coli BL21(DE3) Rosetta 2 pMCSG21 1.811 Cap Protein Beak and feather disease virus Escherichia coli BL21(DE3) LEVO MHHHHHHSSGVDLGTENLYFQSNARRRYARPYRRRHIRRYRRRRRHFRRRRFSTNRIYTLRLTRQFQFKINKQTTSVGNLIFNADYITFALDDFLQAVPNPHTLNFEDYRIKLAKMEMRPTGGHYTVQSDGFGHTAVIQDSRITRFKTTADQTQDPLAPFDGAKKWFVSRGFKRLLRPKPQITIEDLTTANQSAALWLNSARTGWIPLQGGPNSAGTKVRHYGIAFSFPQPEQTITYVTKLTLYVQFRQFAPNNPST 42mer ssDNA Beak and feather disease virus TTATCCACTTCCAATGTTATTAAGTGCTGGGATTGTTAGGGG DNA singleParticle particle 3.6 8. 20.0 C4H11NO3 Tris 125.0 NaCl sodium chloride Quantifoil R1.2/1.3 COPPER 300 GLOW DISCHARGE ETHANE 100 277 FEI VITROBOT MARK IV
3 second blot (-1 force), 2 second drain time.
FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 0.6 3.5 75000. 127000. FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN FEI FALCON II (4k x 4k) INTEGRATING 14.0 1-6 1 1153 1.0 2.65 1 64278 CTFFIND 3 RELION 1.4 5J37 2 I BACK PROJECTION 4.5 FSC 0.143 CUT-OFF RELION 1.4 22663 ANGULAR RECONSTITUTION RELION 1.4 PROJECTION MATCHING RELION 1.4 RELION 1.4 emd_8306.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 260 260 260 0 0 0 260 260 260 265.19998 265.19998 265.19998 90.0 90.0 90.0 X Y Z -0.022331327 0.08072096 0.0032806823 0.01173152 1.02 1.02 1.02 0.03 AUTHOR Beak and feather disease virus-like particle containing ssDNA RIGID BODY FIT
Fitting, considering the icosahedral symmetries, was done using UCSF Chimera.
Correlation coefficient REAL emd_8306_additional.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 260 260 260 0 0 0 260 260 260 265.19998 265.19998 265.19998 90.0 90.0 90.0 X Y Z -1.5292286 0.0625934 -0.035469167 0.116236806 1.02 1.02 1.02 0.03 AUTHOR The difference map produced by subtracting the crystal structure of the protein component from the cryoEM map