2026-08-05 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY PDBe PDBe 2026-07-16 2026-08-05 2026-08-05 2026-08-05 National Institutes of Health/National Cancer Institute (NIH/NCI) R35 GM127134 United States National Institutes of Health/National Cancer Institute (NIH/NCI) NIH R01 AI162961 United States Canadian Institutes of Health Research (CIHR) FDN148463 Canada German Research Foundation (DFG) WI3285/12-1 Germany Cook MA Xu M Morici M Travin DT Wang W Klepacki D Nandini N Rao VN Sahile H Hackenberger D Golas AJ Nietupski RM Fitzgerald M Safdari HA Berger M Corazza M Bond A Ben-Zion I Guitor AK Tertigas D Wang L Schaenzer AJ Ejim L Yarlagadda V Gomez J Surette MG Av-Gay Y Dhar N Hung DT Vazquez Laslop N Mankin A Wilson DN Wright GD Antibiotics, 70S complex, RIBOSOME Morici M Wilson DN To Be Published 0353 32nj FULLOVERLAP PDB 9QQQ unspecified PDB 9QSJ unspecified PDB 9SRO unspecified EMDB EMD-59026 associated EM volume

Cryo-EM structure of SKM-M.smegmatis 70S ribosomal complex

SKM-M.smegmatis 70S complex SKM-M.smegmatis 70S complex 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 Mycolicibacterium smegmatis 2.5 16S rRNA Mycolicibacterium smegmatis 0.495373656 1 UUUUUGUUUGGAGAGUUUGAUCCUGGCUCAGGACGAACGCUGGCGGCGUGCUUAACACAUGCAAGUCGAACGGAAAGGCC CUUUCGGGGGUACUCGAGUGGCGAACGGGUGAGUAACACGUGGGUGAUCUGCCCUGCACUUUGGGAUAAGCCUGGGAAAC UGGGUCUAAUACCGAAUACACCCUGCUGGUCGCAUGGCCUGGUAGGGGAAAGCUUUUGCGGUGUGGGAUGGGCCCGCGGC CUAUCAGCUUGUUGGUGGGGUGAUGGCCUACCAAGGCGACGACGGGUAGCCGGCCUGAGAGGGUGACCGGCCACACUGGG ACUGAGAUACGGCCCAGACUCCUACGGGAGGCAGCAGUGGGGAAUAUUGCACAAUGGGCGCAAGCCUGAUGCAGCGACGC CGCGUGAGGGAUGACGGCCUUCGGGUUGUAAACCUCUUUCAGCACAGACGAAGCGCAAGUGACGGUAUGUGCAGAAGAAG GACCGGCCAACUACGUGCCAGCAGCCGCGGUAAUACGUAGGGUCCGAGCGUUGUCCGGAAUUACUGGGCGUAAAGAGCUC GUAGGUGGUUUGUCGCGUUGUUCGUGAAAACUCACAGCUUAACUGUGGGCGUGCGGGCGAUACGGGCAGACUAGAGUACU GCAGGGGAGACUGGAAUUCCUGGUGUAGCGGUGGAAUGCGCAGAUAUCAGGAGGAACACCGGUGGCGAAGGCGGGUCUCU GGGCAGUAACUGACGCUGAGGAGCGAAAGCGUGGGGAGCGAACAGGAUUAGAUACCCUGGUAGUCCACGCCGUAAACGGU GGGUACUAGGUGUGGGUUUCCUUCCUUGGGAUCCGUGCCGUAGCUAACGCAUUAAGUACCCCGCCUGGGGAGUACGGCCG CAAGGCUAAAACUCAAAGGAAUUGACGGGGGCCCGCACAAGCGGCGGAGCAUGUGGAUUAAUUCGAUGCAACGCGAAGAA CCUUACCUGGGUUUGACAUGCACAGGACGCCGGCAGAGAUGUCGGUUCCCUUGUGGCCUGUGUGCAGGUGGUGCAUGGCU GUCGUCAGCUCGUGUCGUGAGAUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCUUGUCUCAUGUUGCCAGCACGUUAUG GUGGGGACUCGUGAGAGACUGCCGGGGUCAACUCGGAGGAAGGUGGGGAUGACGUCAAGUCAUCAUGCCCCUUAUGUCCA GGGCUUCACACAUGCUACAAUGGCCGGUACAAAGGGCUGCGAUGCCGUGAGGUGGAGCGAAUCCUUUCAAAGCCGGUCUC AGUUCGGAUCGGGGUCUGCAACUCGACCCCGUGAAGUCGGAGUCGCUAGUAAUCGCAGAUCAGCAACGCUGCGGUGAAUA CGUUCCCGGGCCUUGUACACACCGCCCGUCACGUCAUGAAAGUCGGUAACACCCGAAGCCGGUGGCCUAACCCUUGUGGA GGGAGCCGUCGAAGGUGGGAUCGGCGAUUGGGACGAAGUCGUAACAAGGUAGCCGUACCGGAAGGUGCGGCUGGAUCACC UCCUUUCU CP082846.1 Small ribosomal subunit protein bS22 Mycolicibacterium smegmatis 0.0041643 1 LEVO MGSVIKKRRKRMSKKKHRKLLRRTRVQRRKLGK A0QR10 Small ribosomal subunit protein uS3 Mycolicibacterium smegmatis 0.030191226999999998 1 LEVO MGQKINPHGFRLGITTEWKSRWYADKQYKDYVKEDVAIRKLLATGLERAGIADVEIERTRDRVRVDIHTARPGIVIGRRG TEADRIRADLEKLTGKQVQLNILEVKNPESQAQLVAQGVAEQLSNRVAFRRAMRKAIQSAMRQPNVKGIRVQCSGRLGGA EMSRSEFYREGRVPLHTLRADIDYGLYEAKTTFGRIGVKVWIYKGDIVGGKRELAAAAPASDRPRRERPSGTRPRRSGSA GTTATSTEAGRAATSDAPAAGTAAAAEAPAESTES A0QSD7 Small ribosomal subunit protein uS4 Mycolicibacterium smegmatis 0.023415787 1 LEVO MARYTGPATRKSRRLGVDLVGGDQSFEKRPYPPGQHGRARIKESEYRQQLQEKQKARFSYGVMEKQFRRYYEEANRQPGK TGDNLLRILESRLDNVVYRAGLARTRRMARQLVSHGHFLVNGVKVDIPSYRVSQYDIIDVKEKSLNTLPFQIARETAGER PIPSWLQVVGERQRILVHQLPERAQIDVPLTEQLIVELYSK A0QSL7 Small ribosomal subunit protein uS5 Mycolicibacterium smegmatis 0.021946089999999998 1 LEVO MAEQAGAGSAQDNRGGRGRRDDRGGRGRDGGDKSNYIERVVSINRVSKVVKGGRRFSFTALVIVGDGKGMVGVGYGKAKE VPAAIAKGVEEARKNFFRVPLIGSTITHPVQGEAAAGVVMLRPASPGTGVIAGGAARAVLECAGVHDILAKSLGSDNAIN VVHATVAALKLLQRPEEVAARRGLPIEDVAPAGMLKARRESEALAAAAAREGSA A0QSG6 Small ribosomal subunit protein bS6 Mycolicibacterium smegmatis 0.010991637 1 LEVO MRPYEIMVILDPTLDERTVAPSLETFLNVIRKDGGTVDKVDIWGRRRLAYEIAKHAEGIYAVIDVKAEPATVSELDRQLN LNESVLRTKVLRTDKH A0A2U9Q0X2 Small ribosomal subunit protein uS7 Mycolicibacterium smegmatis 0.017660375 1 LEVO MPRKGPAPKRPLVNDPVYGSQLVTQLVNKVLLEGKKSLAERIVYGALEQAREKTGTDPVVTLKRALDNVKPALEVRSRRV GGATYQVPVEVRPDRSTTLALRWLVNFSRQRREKTMVERLANEILDASNGLGASVKRREDTHKMAEANRAFAHYRW A0QS97 Small ribosomal subunit protein uS8 Mycolicibacterium smegmatis 0.014492638 1 LEVO MTMTDPIADFLTRLRNANSAYHDEVTLPHSKLKANIAEILKREGYISDYRTEDARVGKSLVVQLKYGPSRERSIAGLRRV SKPGLRVYAKSTNLPRVLGGLGVAIISTSSGLLTDRQAARQGVGGEVLAYVW A0QSG3 Small ribosomal subunit protein uS9 Mycolicibacterium smegmatis 0.016794365000000002 1 LEVO MTDVTETEVVTESAEPREPVIIDRPIQTVGRRKEAVVRVRLVPGTGQFNLDGRTLENYFPNKVHQQLIKAPLVTVDRVDQ FDIYAHLDGGGPSGQAGALRLAIARALILVQPEDRPALKKAGFLTRDPRAIERKKYGLKKARKAPQYSKR A0QSP9 Small ribosomal subunit protein uS10 Mycolicibacterium smegmatis 0.011454312999999999 1 LEVO MAGQKIRIRLKAYDHEAIDASARKIVETVTRTGASVVGPVPLPTEKNVYCVIRSPHKYKDSREHFEMRTHKRLIDILDPT PKTVDALMRIDLPASVDVNIQ A0QSD0 Small ribosomal subunit protein uS11 Mycolicibacterium smegmatis 0.014671762 1 LEVO MAQAKKGGTAAKKGQKTRRREKKNVPHGAAHIKSTFNNTIVSITDPQGNVIAWASSGHVGFKGSRKSTPFAAQLAAENAA RKAQEHGVKKVDVFVKGPGSGRETAIRSLQAAGLEVGTISDVTPQPHNGCRPPKRRRV A0QSL6 Small ribosomal subunit protein uS12 Mycolicibacterium smegmatis 0.013896365999999999 1 LEVO MPTIQQLVRKGRRDKIAKVKTAALKGSPQRRGVCTRVYTTTPKKPNSALRKVARVKLTSQVEVTAYIPGEGHNLQEHSMV LVRGGRVKDLPGVRYKIIRGSLDTQGVKNRKQARSRYGAKKEKS A0QS96 Small ribosomal subunit protein uS14B Mycolicibacterium smegmatis 0.006976408999999999 1 LEVO MAKKALVHKANKKPKFAVRAYTRCNKCGRPHSVYRKFGLCRICLREMAHAGELPGVQKSSW A0QSG2 Small ribosomal subunit protein uS15 Mycolicibacterium smegmatis 0.010368097 1 LEVO MALTAEQKKEILGQYGLHDTDTGSPEAQVALLTKRIQDLTEHLKVHKHDHHSRRGLLLLVGRRRRLLKYVAQVDVARYRS LIERLGLRR A0QVQ3 Small ribosomal subunit protein bS16 Mycolicibacterium smegmatis 0.016795206999999996 1 LEVO MAVKIKLTRLGKIRNPQYRIIVADARTRRDGRAIEVIGRYHPKEEPSLIQIDSERAQYWLGVGAQPTEPVLALLKITGDW QKFKGLPGAEGTLKVKEPKPSKLDLFNAALAEAESGTTAAATTPKKKKAPKKDEAAEAPAEAAEAPAEAADAASES A0QV37 Small ribosomal subunit protein uS17 Mycolicibacterium smegmatis 0.011127002 1 LEVO MADQKGPKYTPAAEKPRGRRKTAIGYVVSDKMQKTIVVELEDRKSHPLYGKIIRTTKKVKAHDENGEAGIGDRVSLMETR PLSATKRWRLVEILEKAK A0QSE0 Small ribosomal subunit protein bS18B Mycolicibacterium smegmatis 0.009524188 1 LEVO MAKSNKRRPAPEKPVKTRKCVFCSKKGQTIDYKDTALLRTYISERGKIRARRVTGNCVQHQRDIAVAVKNAREVALLPFG SSTR A0R7F7 Small ribosomal subunit protein bS20 Mycolicibacterium smegmatis 0.009556104 1 LEVO MANIKSQIKRIRTNERRRLRNQSVKSSLRTAIRGFREAVDAGDKDKASELLHATSRKLDKAASKGVIHPNQAANKKSALA LALNKL A0R102 [(2~{S},3~{S},4~{R},5~{R},6~{S})-4-[(2~{S},3~{R},4~{S},5~{R},6~{S})-5-acetamido-6-(hydroxymethyl)-4-[(2~{R},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-4-[(2~{S},3~{R},4~{R},5~{R},6~{R})-6-(hydroxymethyl)-5-methoxy-3,4-bis(oxidanyl)oxan-2-yl]oxy-3,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-oxan-2-yl]oxy-2-(hydroxymethyl)-6-[[~{N}-[4-[(~{N}-methylcarbamimidoyl)amino]butyl]carbamimidoyl]amino]-5-oxidanyl-oxan-3-yl] carbamate 0.0009329239999999999 1 A1JAI MAGNESIUM ION 2.4305e-05 77 MG ZINC ION 6.5409e-05 2 ZN water 1.8015e-05 3 HOH singleParticle particle 7.6 ETHANE-PROPANE 100 TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.3 1.4000000000000001 GATAN K3 BIOQUANTUM (6k x 4k) 43.0 1 PHASE FLIPPING AND AMPLITUDE CORRECTION Molmap made from PDB: 9N5T using ChimeraX. The model has been previously devoided of any specific features (mRNA and tRNAs) and the resulting map lowpassfiltered and resampled 3.0 FSC 0.143 CUT-OFF RELION 5 68217 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD emd_59026_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 432 432 432 0 0 0 432 432 432 359.424 359.424 359.424 90.0 90.0 90.0 X Y Z -0.0038659617 0.03232297 0.00051628874 0.0025268707 0.832 0.832 0.832 AUTHOR ::::EMDATABANK.org::::EMD-59026:::: 3D refined map focused on the 30S, where the drug binds emd_59026_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 432 432 432 0 0 0 432 432 432 359.424 359.424 359.424 90.0 90.0 90.0 X Y Z -0.00425467 0.03725175 0.0005305788 0.0026144357 0.832 0.832 0.832 AUTHOR ::::EMDATABANK.org::::EMD-59026:::: 3D refined map, not focused. The particles used to obtain it are the same input particles for the 3D focus refined one emd_59026_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 432 432 432 0 0 0 432 432 432 359.424 359.424 359.424 90.0 90.0 90.0 X Y Z -0.02224537 0.043447446 0.00051123864 0.0033272083 0.832 0.832 0.832 AUTHOR ::::EMDATABANK.org::::EMD-59026:::: Half-map 2 used to generate the 3D refined map focused on the 30S, where the drug binds emd_59026_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 432 432 432 0 0 0 432 432 432 359.424 359.424 359.424 90.0 90.0 90.0 X Y Z -0.026374087 0.04821734 0.0005213562 0.003369371 0.832 0.832 0.832 AUTHOR ::::EMDATABANK.org::::EMD-59026:::: Half-map 1 used to generate the 3D refined map focused on the 30S, where the drug binds