2023-12-20 OBS PDBe PDBe PDBe 2023-06-16 2023-07-19 2023-07-19 2023-12-20 2023-12-20 Grant Agency of the Czech Republic GX19-25982X Czech Republic European Research Council (ERC) 101043454 European Union Cryo-EM structure of the Emiliania huxleyi virus 201 (EhV-201) virion vertex with a diameter of 50 nm and a mask applied on the capsid layer. Homola M Buttner CR Fuzik T Novacek J Chaillet M Forster F Plevka P cryo-EM, subtomogram averaging, EhV-201, enveloped virus, capsid, major capsid protein, VIRUS Homola M Buttner CR Fuzik T Novacek J Chaillet M Forster F Structure and replication cycle of a virus infecting climate-modulating alga Emiliania huxleyi To Be Published 0353 8pfm FULLOVERLAP Emiliania huxleyi virus 201 Emiliania huxleyi virus 201 0 1 2
EhV-201 was propagated on a non-calcifying Emiliania huxleyi strain (CCPM 2090).
Emiliania huxleyi virus 201 Emiliania huxleyi CCMP1516 CCMP 2090 inner membrane capsid 1990.0 169 outer membrane 2110.0 VIRION SPECIES true false Major capsid protein Emiliania huxleyi virus 201 0.053730245999999995
AlphaFold2 predicted structure.
18 LEVO AGSLTQLLATGSMDAALTQNATRTFWKSSYQKHSLFALESINQPFTTQVQFGAESHITVNRQGDLLSWMYLKIVLPGLKV QNQADTVQPTQQSFASLDNDVAAQADVSHVLPYIEGAYTEASLNTKEQLIAEAKNSYEAAKYNAAPLPVAAQMQSTEMPD FDYAYWTEAIGFHLIKRAEFKVGGATIDTIWSELLFAMEELMGRAGRRLTETIGRTLRRPTELMKASRQEQILYVPLPWY FTKHPSLAFPLVAATYHNIQLWVQWAQLNSCIIKSRSNLVVLHAERNVPISDDHLRASLECTYVHLEAAERDALTANAGT QLIVQHQAHLQQVSSNNVTARLNFNFPVLEFYYFLRRKANKDAGDHFNFSGIGGRDPVVSAELLFNNTARVTQKPAVWWR AVQALQFHSSAPLTNIYSYSFSLSPEDPITPSGSANFSRLDSVELALTLQDDFGAAHDANSELFVFARSYNILKFTNGLA G G9E4T6 Paramecium bursaria chlorella virus 1 (PBCV-1) penton protein. Paramecium bursaria Chlorella virus 1 0.01789217 1 LEVO VETTQHFVSIESSNRPDPANTTPANYSIQLPQRYRNIWSAMLVNIALPAVSPPQKYVYLDIDKLNSIDSTSPSGGVNFAL AKIPLSIAGTGNVFFADTMTSSFPNVPLQNPVATMDKLNIKLKDANGNVLTIPAGNEHSFMIQLTCGDYIPRGGGSTITQ NGRVLGG Q84626 subtomogramAveraging particle 8.0 sea salt
Sea salts (Sigma Aldrich - S9883) were dissolved in distilled water (40 g/L w/v), filtered through a 0.22 um filter, and pH adjusted to 8.
 Quantifoil R2/1 COPPER 200 CARBON HOLEY 12.0 GLOW DISCHARGE OTHER 5e-05
top side only
 ETHANE 100 283.15 FEI VITROBOT MARK IV
Sample: 3.5 ul; Wait time: 10 s; Blot time: 3 s; Blot force: -2; Drain time: 0 s.
The viral sample was concentrated down to 1x10^10 plaque-forming units per ml (PFU ml^-1)
 FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 30.0 2.7 2.0 2.0 4.0 4.0 42000.0 42000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 77.0 77.0 GIF Bioquantum 10 GATAN K3 BIOQUANTUM (6k x 4k) 5760 4092 4323 1.5 2.42 1 1 C5 FOURIER SPACE 12.0 FSC 0.143 CUT-OFF RELION 4.0 2880 131 10240 EhV-201 virion vertex reconstruction coming out of localized single particle reconstruction template matching emClarity 1.5.3.11 Warp 1.0.9 2 1600.0 RELION 4.0 MAXIMUM LIKELIHOOD RELION 4.0 emd_17648.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 532.48 532.48 532.48 90.0 90.0 90.0 X Y Z -0.06285344 0.48665527 0.0192372 0.06665328 4.16 4.16 4.16 0.2 AUTHOR G9E4T6 AlphaFold in silico model 6NCL a6 PDB experimental model RIGID BODY FIT Cross-correlation coefficient REAL emd_17648_msk_1.map emd_17648_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 532.48 532.48 532.48 90.0 90.0 90.0 X Y Z 0.0 1.0 0.1650633 0.35161772 4.16 4.16 4.16 AUTHOR emd_17648_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 532.48 532.48 532.48 90.0 90.0 90.0 X Y Z -0.19139078 0.48665527 0.025404386 0.070846416 4.16 4.16 4.16 AUTHOR emd_17648_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 532.48 532.48 532.48 90.0 90.0 90.0 X Y Z -0.43370333 0.68599665 0.028760508 0.12910292 4.16 4.16 4.16 AUTHOR emd_17648_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 532.48 532.48 532.48 90.0 90.0 90.0 X Y Z -0.42562976 0.71420443 0.029939966 0.12922072 4.16 4.16 4.16 AUTHOR