2024-03-06 REL RCSB RCSB RCSB 2020-06-17 2020-07-01 2020-07-01 2024-03-06 National Health and Medical Research Council (NHMRC, Australia) 1092262 Australia Australian Research Council (ARC) FL130100038 Australia Wellcome Trust 106077/Z/14/Z United Kingdom YSD1 bacteriophage capsid Hardy JM Dunstan R Bacteriophage capsid, VIRUS Hardy JM Dunstan RA Grinter R Belousoff MJ Wang J Pickard D Venugopal H Dougan G Lithgow T Coulibaly F The architecture and stabilisation of flagellotropic tailed bacteriophages. Nat Commun UK 11 3748 3748 2020 32719311 doi:10.1038/s41467-020-17505-w 2041-1723 6xgq FULLOVERLAP Bacteriophage sp. Bacteriophage sp. 0 1 2
From environmental water samples taken during a phage survey of the waterways of Cambridge UK, the phage YSD1 was isolated using the attenuated S. enterica serovar Typhi BRD948. The virus was then amplified by infecting S. Typhimurium SL3261 delta-fljB.
Bacteriophage sp. YSD1 Salmonella enterica subsp. enterica serovar Typhi 22.8 YSD1 capsid 650.0 7 VIRION SUBSPECIES false false YSD1_17 Bacteriophage sp. 0.039945598 7 LEVO MAGLYTTYQLLEVQRKLKTLPAFFLQWFPRQINFQEDMIAFDKVIQDVTRVAPFVAPNVQGRVIKESGYNTKTFKPAYVK PKHVIDPNMIIPRQPGEALGTGTLSIAQRRDRVIAYLLMKHRAMHENTWEWMAAQAAQYGYVDVQGQDYPLVRVDFGRDA ALTMTTDWTAAGVTLMDMIADLRDGQRLVSDKSMSGTVIRDYVFGGDAWDQFVKVGGKELWGKDGLMDSTIRGSETNVTR LWDDVEGVQYMGELVGANGAGRMRIWVNTQKYRDQNDQEQFLMKQKAVMGISSAIEGVRCFGAILDKGAGYQALDYFPKM WDQEDPSVEYLMSQGAPLMVPADPNASFLLTVMS A0A498U580 YSD1_16 Bacteriophage sp. 0.014401047 7 LEVO MNLLTMMAATSLPNYLAGNGDLGSWEPTQIFAGEADIVTEGGAAGADIEIYQVIAKNAAGAMVPHDPTATTGTSPDEVPA PQSVAIGIAAQPAKSGQNVPYYIGGVFNHAALGWHASLDTLAKRQAVFDRTNIHIGNLY A0A498TZZ8 singleParticle particle 7.5 100.0 NaCl Sodium chloride 8.0 MgSO4 Magnesium Sulfate 10.0 Tris-HCl Tris pH 7.5 ETHANE 100 277 FEI VITROBOT MARK IV
The grid was blotted for 2 seconds with a blot force of -3 and no drain time..
FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.7 0.5 2.5 105000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GATAN K2 QUANTUM (4k x 4k) SUPER-RESOLUTION 1-30 1 1881 12.0 27.24 1 7366 Soft sphere 11 I BACK PROJECTION 3.8 FSC 0.143 CUT-OFF RELION 2.1 5449 MAXIMUM LIKELIHOOD RELION 2.1 MAXIMUM LIKELIHOOD RELION 2.1 50 126.0 RELION 2.1
2D classification was used to remove particles with contamination features and poor signal-to-noise. Particles from 11 classes were selected for 3D reconstruction.
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