Cutibacterium acnes 50S ribosomal subunit with Clindamycin bound
Lomakin IB, Devarkar SC, Grada A, Bunick CG
J Invest Dermatol. (2024) 144 pp. 2553-2561.e3 [ Pubmed: 39122144 DOI: doi:10.1016/j.jid.2024.07.013 ]
- 50s ribosomal protein l3 (23 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l28 (6 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l5 (23 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l23 (11 kDa, Protein from Cutibacterium acnes)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l19 (13 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l25 (22 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l14 (13 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l31 (7 kDa, Protein from Cutibacterium acnes)
- Water (18 Da, Ligand)
- 50s ribosomal protein l32 (6 kDa, Protein from Cutibacterium acnes)
- 50s subunit with clindamycin bound (Complex from Cutibacterium acnes)
- 50s ribosomal protein l2 (30 kDa, Protein from Cutibacterium acnes)
- Large ribosomal subunit protein ul24 (13 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l20 (13 kDa, Protein from Cutibacterium acnes)
- 5s rrna (38 kDa, RNA from Cutibacterium acnes)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l34 (5 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l36 (4 kDa, Protein from Cutibacterium acnes)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Cutibacterium acnes)
- 23s rrna (1 MDa, RNA from Cutibacterium acnes)
- 50s ribosomal protein l22 (16 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l13 (16 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l4 (32 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l33 (6 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l27 (9 kDa, Protein from Cutibacterium acnes)
- Clindamycin (424 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l29 (8 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l18 (13 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein bl37 (2 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l6 (19 kDa, Protein from Cutibacterium acnes)
- Large ribosomal subunit protein bl17 (20 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l30 (6 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l16 (15 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l15 (15 kDa, Protein from Cutibacterium acnes)
Mycobacterium smegmatis 50S ribosomal subunit-HflX complex
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8kab
Q-score: 0.419
Srinivasan K, Banerjee A, Sengupta J
Structure (2024) 32 pp. 1443- [ DOI: doi:10.1016/j.str.2024.06.016 Pubmed: 39029461 ]
- 50s ribosomal protein l11 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein bl37 (2 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l10 (18 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l28 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l30 (7 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l17 (21 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l23 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l9 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l2 (30 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l5 (21 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l6 (19 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Gtpase hflx (52 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l13 (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l24 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l31 (8 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l33 1 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l25 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- Mycobacterium smegmatis 50s ribosomal subunit (Cellular component from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l36 (4 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l22 (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l29 (8 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l32 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l19 (12 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l34 (5 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l35 (7 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l4 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l14 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l21 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 5s rrna (38 kDa, RNA from Mycolicibacterium smegmatis MC2 155)
- Mycobacterium smegmatis 50s ribosomal subunit-hflx complex (Complex from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l3 (23 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l18 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Mycobacterium smegmatis hflx (Cellular component from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l16 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l20 (14 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l27 (9 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 23s rrna (1 MDa, RNA from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l15 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Mycobacterium smegmatis 50S ribosomal subunit with Erythromycin
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8xz3
Q-score: 0.473
Srinivasan K, Banerjee A, Sengupta J
Structure (2024) 32 pp. 1443- [ DOI: doi:10.1016/j.str.2024.06.016 Pubmed: 39029461 ]
- Large ribosomal subunit protein bl25 (20 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul10 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul2 (30 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl17 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul11 (14 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul6 (19 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Erythromycin a (733 Da, Ligand)
- Large ribosomal subunit protein bl28 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl21 (10 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l9 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul23 (10 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl27 (8 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul3 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl31 (5 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Mycobacterium smegmatis 50s ribosomal subunit (Cellular component from Mycolicibacterium smegmatis MC2 155)
- Mycobacterium smegmatis 50s ribosomal subunit-erythromycin complex (Complex from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l36 (4 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl20 (14 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l19 (12 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein bl37 (2 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul18 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l14 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 5s rrna (38 kDa, RNA from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl33a (5 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 23s rrna (1 MDa, RNA from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl32 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Mycobacterium smegmatis 50S ribosomal subunit from Stationary phase of growth
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7xam
Q-score: 0.517
Int J Biol Macromol (2023) 253 pp. 126876-126876 [ Pubmed: 37709237 DOI: doi:10.1016/j.ijbiomac.2023.126876 ]
- 50s ribosomal protein l11 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein bl37 (2 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l10 (18 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l28 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Zinc ion (65 Da, Ligand)
- Mycobacterium smegmatis 50s ribosomal subunit from stationary phase of growth (1 MDa, Complex from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l30 (7 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l17 (21 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l23 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l9 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l2 (30 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l5 (21 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l6 (19 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l13 (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l24 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l31 (8 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l33 1 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l25 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l36 (4 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l22 (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l29 (8 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l32 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l19 (12 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l34 (5 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l35 (7 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l4 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l14 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l21 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Magnesium ion (24 Da, Ligand)
- 5s rrna (38 kDa, RNA from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l3 (23 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l18 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l16 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l20 (14 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l27 (9 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 23s rrna (1 MDa, RNA from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l15 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Cutibacterium acnes 70S ribosome with mRNA, P-site tRNA and Sarecycline bound
Resolution: 2.78 Å
EM Method: Single-particle
Fitted PDBs: 8crx
Q-score: 0.519
Lomakin IB, Devarkar SC, Patel S, Grada A, Bunick CG
Nucleic Acids Res (2023) 51 pp. 2915-2930 [ DOI: doi:10.1093/nar/gkad103 Pubmed: 36864821 ]
- 50s ribosomal protein l17 (20 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l3 (23 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s10 (11 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l5 (23 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l28 (6 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l23 (11 kDa, Protein from Cutibacterium acnes)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l19 (13 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l21 (11 kDa, Protein from Cutibacterium acnes)
- Rna (1537-mer) (498 kDa, RNA from Cutibacterium acnes)
- 50s ribosomal protein l25 (22 kDa, Protein from Cutibacterium acnes)
- 5s ribosomal rna (38 kDa, RNA from Cutibacterium acnes)
- 50s ribosomal protein l14 (13 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l24 (13 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s3 (29 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l31 (7 kDa, Protein from Cutibacterium acnes)
- 23s ribosomal rna (1 MDa, RNA from Cutibacterium acnes)
- 30s ribosomal protein s16 (15 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s5 (22 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l32 (6 kDa, Protein from Cutibacterium acnes)
- Water (18 Da, Ligand)
- 30s ribosomal protein s13 (14 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s17 (10 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l2 (30 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s7 (17 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l20 (13 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l35 (7 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l34 (5 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s2 (31 kDa, Protein from Cutibacterium acnes)
- Sarecycline (487 Da, Ligand)
- 30s ribosomal protein s14 type z (6 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l36 (4 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l22 (16 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s15 (10 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s4 (23 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s20 (9 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s19 (10 kDa, Protein from Cutibacterium acnes)
- P-site initiator trna (24 kDa, RNA from Escherichia coli)
- 70s ribosome with mrna, p-site trna and sarecycline bound (Complex from Cutibacterium acnes)
- 50s ribosomal protein l13 (16 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l4 (32 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l33 (6 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l27 (9 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s8 (14 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s18 (8 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s6 (11 kDa, Protein from Cutibacterium acnes)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l29 (8 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l18 (13 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s11 (14 kDa, Protein from Cutibacterium acnes)
- 32mf mrna (7 kDa, RNA from Escherichia coli)
- 50s ribosomal protein bl37 (2 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s12 (13 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l6 (19 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l30 (6 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein s9 (18 kDa, Protein from Cutibacterium acnes)
- 30s ribosomal protein bs22 (4 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l16 (15 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l15 (15 kDa, Protein from Cutibacterium acnes)
Resolution: 2.66 Å
EM Method: Single-particle
Fitted PDBs: 8cvm
Q-score: 0.565
Lomakin IB, Devarkar SC, Patel S, Grada A, Bunick CG
Nucleic Acids Res (2023) 51 pp. 2915-2930 [ DOI: doi:10.1093/nar/gkad103 Pubmed: 36864821 ]
- 50s subunit from 70s ribosome with mrna, p-site trna and sarecycline bound (Complex from Cutibacterium acnes)
- 50s ribosomal protein l17 (20 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l3 (23 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l28 (6 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l5 (23 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l23 (11 kDa, Protein from Cutibacterium acnes)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l19 (13 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l25 (22 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l21 (11 kDa, Protein from Cutibacterium acnes)
- 5s ribosomal rna (38 kDa, RNA from Cutibacterium acnes)
- 50s ribosomal protein l14 (13 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l24 (13 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l31 (7 kDa, Protein from Cutibacterium acnes)
- 23s ribosomal rna (1 MDa, RNA from Cutibacterium acnes)
- Water (18 Da, Ligand)
- 50s ribosomal protein l32 (6 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l2 (30 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l20 (13 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l35 (7 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l34 (5 kDa, Protein from Cutibacterium acnes)
- Sarecycline (487 Da, Ligand)
- 50s ribosomal protein l36 (4 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l22 (16 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l13 (16 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l4 (32 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l33 (6 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l27 (9 kDa, Protein from Cutibacterium acnes)
- Initiator fmet rna (24 kDa, RNA from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l29 (8 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l18 (13 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein bl37 (2 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l6 (19 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l30 (6 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l16 (15 kDa, Protein from Cutibacterium acnes)
- 50s ribosomal protein l15 (15 kDa, Protein from Cutibacterium acnes)
M. tuberculosis ribosomal RNA methyltransferase TlyA bound to M. smegmatis 50S ribosomal subunit
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 7s0s
Q-score: 0.383
Laughlin ZT, Nandi S, Dey D, Zelinskaya N, Witek MA, Srinivas P, Nguyen HA, Kuiper EG, Comstock LR, Dunham CM, Conn GL
PNAS (2022) 119 pp. e2120352119-e2120352119 [ Pubmed: 35357969 DOI: doi:10.1073/pnas.2120352119 ]
- 50s ribosomal protein l33 (5 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l16 (15 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l6 (19 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l32 (6 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l4 (22 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l28 (6 kDa, Protein from Mycolicibacterium smegmatis)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l23 (10 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l34 (5 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l21 (10 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l15 (15 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l9 (15 kDa, Protein from Mycolicibacterium smegmatis)
- 16s/23s rrna (cytidine-2'-o)-methyltransferase tlya (29 kDa, Protein from Mycobacterium tuberculosis)
- 50s ribosomal protein l35 (7 kDa, Protein from Mycolicibacterium smegmatis)
- 50s (Complex from Mycolicibacterium smegmatis)
- 50s ribosomal protein l27 (8 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l19 (12 kDa, Protein from Mycolicibacterium smegmatis)
- Mtb tlya bound to msg 50s ribosomal subunit modified at c2144 with sam analog nm6. (Complex)
- 50s ribosomal protein l25 (20 kDa, Protein from Mycolicibacterium smegmatis)
- 23s rrna (1 MDa, RNA from Mycolicibacterium smegmatis)
- 50s ribosomal protein l5 (20 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l22 (12 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l3 (22 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l31 (5 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l30 (6 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l24 (11 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l29 (7 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l11 (14 kDa, Protein from Mycolicibacterium smegmatis)
- Ribosomal protein bl37 (2 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l18 (13 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l36 (4 kDa, Protein from Mycolicibacterium smegmatis)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l20 (14 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l13 (16 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l10 (13 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l14 (13 kDa, Protein from Mycolicibacterium smegmatis)
- Tlya (Complex from Mycobacterium tuberculosis)
- 5s rrna (38 kDa, RNA from Mycolicibacterium smegmatis)
- 50s ribosomal protein l2 (30 kDa, Protein from Mycolicibacterium smegmatis)
- 50s ribosomal protein l17 (13 kDa, Protein from Mycolicibacterium smegmatis)
Cryo-EM reconstruction of the large subunit of the Mycobacterium smegmatis ribosome
Resolution: 3.18 Å
EM Method: Single-particle
Fitted PDBs: 5o60
Q-score: 0.487
Hentschel J, Burnside C, Mignot I, Leibundgut M, Boehringer D, Ban N
Cell Rep (2017) 20 pp. 149-160 [ DOI: doi:10.1016/j.celrep.2017.06.029 Pubmed: 28683309 ]
- 50s ribosomal protein l19 (12 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l25 (22 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l31 (8 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l4 (22 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 5s rrna (38 kDa, RNA from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l35 (7 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l10 (18 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l17 (21 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l34 (5 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l16 (15 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s large ribosomal subunit (Complex from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein bl37 (2 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l23 (11 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l14 (13 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l28 (6 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l33 1 (6 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l2 (30 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- Phenylalanine (165 Da, Ligand from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l15 (15 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l29 (8 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l24 (11 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l27 (9 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l36 (4 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l21 (11 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l32 (6 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l3 (23 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l6 (19 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l18 (13 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l9 (15 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 23s rrna (1 MDa, RNA from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l22 (16 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l30 (7 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l13 (16 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l5 (21 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l11 (15 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l20 (14 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- Trna cca-end acetylated (phe) (894 Da, RNA from Mycobacterium smegmatis str. MC2 155)
Cryo-EM reconstruction of the Mycobacterium smegmatis 70S ribosome
Hentschel J, Burnside C, Mignot I, Leibundgut M, Boehringer D, Ban N
Cell Rep (2017) 20 pp. 149-160 [ DOI: doi:10.1016/j.celrep.2017.06.029 Pubmed: 28683309 ]
- 50s ribosomal protein l19 (12 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s12 (13 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s16 (16 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l25 (22 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s17 (11 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l31 (8 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l4 (22 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s15 (10 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 5s rrna (38 kDa, RNA from Mycobacterium smegmatis str. MC2 155)
- Mrna fragment (1 kDa, RNA from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l35 (7 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s5 (21 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l10 (18 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l17 (21 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l34 (5 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s4 (23 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l16 (15 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s18 2 (9 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- Zinc ion (65 Da, Ligand)
- 70s ribosome (Complex from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein bl37 (2 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l23 (11 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l14 (13 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l33 1 (6 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l2 (30 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- Phenylalanine (165 Da, Ligand from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l15 (15 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l29 (8 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s10 (11 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s8 (14 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l24 (11 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s9 (16 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l27 (9 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l36 (4 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s20 (9 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s3 (30 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- P/p-site phe-trna(phe) (24 kDa, RNA from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l21 (11 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- Lsu ribosomal protein l28p (6 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l3 (23 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l32 (6 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- Conserved domain protein (4 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l6 (19 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l18 (13 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s11 (14 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s6 (10 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l9 (15 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 23s rrna (1 MDa, RNA from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l22 (16 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l30 (7 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s14 type z (6 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l13 (16 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l5 (21 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s7 (17 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s13 (14 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 16s rrna (495 kDa, RNA from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l11 (15 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s19 (10 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 50s ribosomal protein l20 (14 kDa, Protein from Mycobacterium smegmatis str. MC2 155)
- 30s ribosomal protein s2 (30 kDa, Protein from Mycobacterium smegmatis str. MC2 155)