2025-10-29 REL RCSB INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY RCSB RCSB 2025-10-08 2025-10-29 2025-10-29 2025-10-29 Not funded Structure of bacteriophage Sf6 at 7.26 Angstrom resolution by cryo-electron tomography and sub-tomogram averaging with 159 particles (9540 averaging units due to the icosahedral symmetry) Tang L bacteriophage, shigella, podovirus, VIRUS Tang L Structure of bacteriophage Sf6 at 7.26 Angstrom resolution by cryo-electron tomography and sub-tomogram To Be Published 0353 PDB 5L35 unspecified EMDB EMD-73070 associated EM volume Shigella phage Sf6 Shigella phage Sf6 0 1
complete vision purified from infected Shigella hosts
Shigella phage Sf6 Shigella flexneri 19 gp5 690.0 7 VIRION SPECIES false false bacteriophage Sf6 complete virion Shigella flexneri
capsid protein gp5
MPNNLDSNVSQIVLKKFLPGFMSDLVLAKTVDRQLLAGEINSSTGDSVSFKRPHQFSSLRTPTGDISGQNKNNLISGKATGRVGNYITVAVEYQQLEEAIKLNQLEEILAPVRQRIVTDLETELAHFMMNNGALSLGSPNTPITKWSDVAQTASFLKDLGVNEGENYAVMDPWSAQRLADAQTGLHASDQLVRTAWENAQIPTNFGGIRALMSNGLASRTQGAFGGTLTVKTQPTVTYNAVKDSYQFTVTLTGATASVTGFLKAGDQVKFTNTYWLQQQTKQALYNGATPISFTATVTADANSDSGGDVTVTLSGVPIYDTTNPQYNSVSRQVEAGDAVSVVGTASQTMKPNLFYNKFFCGLGSIPLPKLHSIDSAVATYEGFSIRVHKYADGDANVQKMRFDLLPAYVCFNPHMGGQFFGNP Q716H0 other subtomogramAveraging particle 5 7.4 10.0 Tris-HCl 1.0 MgCl2 C-flat-1.2/1.3 GOLD 400 CARBON HOLEY PLASMA CLEANING AIR ETHANE 100 277 FEI VITROBOT MARK IV FEI TALOS ARCTICA FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 1.0 6.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GATAN K3 BIOQUANTUM (6k x 4k) 5760 4092 1 0.4 3.0
11 tilt series were collected.
 1 1 I BACK PROJECTION 7.26 FSC 0.143 CUT-OFF RELION 5 159 11 637 ab initio model from manually picked particles template matching RELION 5 EMAN2 2.99
A small set (~30) particles were manually picked from a tilt series with EMAN2, which were used to generate an ab initial model. This model was used to pick particles in all tilt series by template matching with EMAN2. Particle coordinates were exported to Relion 5.
 CTFFIND 4.1.5
CTF correction was done with CtfFind4.1.5 wrapped in Relion5.
PHASE FLIPPING AND AMPLITUDE CORRECTION 1 RELION 5
All particles were classified into the best 3D class.
 MAXIMUM LIKELIHOOD RELION 5 emd_73070.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 828.288 828.288 828.288 90.0 90.0 90.0 X Y Z -3.9639933 5.7584004 0.017059838 0.26821 2.157 2.157 2.157 0.626 AUTHOR 7.26A map from 159 particles by cryoET and sub-tomogram averaging 5L35 Other experimental model
models from 5L35 were fitted into the map
 RIGID BODY FIT emd_73070_msk_2.map emd_73070_msk_1.map emd_73070_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 837.88794 837.88794 837.88794 90.0 90.0 90.0 X Y Z -2.1315167 3.1016831 0.000000000000076 0.3300574 2.182 2.182 2.182 AUTHOR half map from a relion5 Reconstruct job emd_73070_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 837.88794 837.88794 837.88794 90.0 90.0 90.0 X Y Z -2.6793227 4.6044803 0.000000000001498 0.37945727 2.182 2.182 2.182 AUTHOR half map from a relion5 Reconstruct job