Specific features and methylation sites of a plant ribosome. 40S body ribosomal subunit.
Resolution: 2.53 Å
EM Method: Single-particle
Fitted PDBs: 7qix
Q-score: 0.648
Cottilli P, Itoh Y, Nobe Y, Petrov AS, Lison P, Taoka M, Amunts A
Plant Commun. (2022) 3 pp. 100342-100342 [ DOI: doi:10.1016/j.xplc.2022.100342 Pubmed: 35643637 ]
- 40s ribosomal protein s3a (29 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s21 (9 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s27 (9 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s8 (24 kDa, Protein from Solanum lycopersicum)
- 40s body ribosomal protein us12 (15 kDa, Protein from Solanum lycopersicum)
- 30s ribosomal protein s15, chloroplastic (17 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s7 (22 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s30 (6 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s24 (15 kDa, Protein from Solanum lycopersicum)
- 18s rrna body (583 kDa, RNA from Solanum lycopersicum)
- Potassium ion (39 Da, Ligand)
- 40s body ribosomal protein es4 (29 kDa, Protein from Solanum lycopersicum)
- Ribosomal protein l19 (24 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s15a-1 (14 kDa, Protein from Solanum lycopersicum)
- Ribosomal_s17_n domain-containing protein (17 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s17 (16 kDa, Protein from Solanum lycopersicum)
- Water (18 Da, Ligand)
- Ribosomal protein s14 (16 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein sa (32 kDa, Protein from Solanum lycopersicum)
- 40s body ribosomal protein us4 (23 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein l41 (3 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s6 (28 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s26 (14 kDa, Protein from Solanum lycopersicum)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- 40s body ribosomal subunit (Complex from Solanum lycopersicum)
- S5 drbm domain-containing protein (30 kDa, Protein from Solanum lycopersicum)
Cryo-EM structure of the highly atypical cytoplasmic ribosome of Euglena gracilis
Resolution: 3.15 Å
EM Method: Single-particle
Fitted PDBs: 6zj3
Q-score: 0.548
Matzov D, Taoka M, Nobe Y, Yamauchi Y, Halfon Y, Asis N, Zimermann E, Rozenberg H, Bashan A, Bhushan S, Isobe T, Gray MW, Yonath A, Shalev-Benami M
Nucleic Acids Res (2020) 48 pp. 11750-11761 [ DOI: doi:10.1093/nar/gkaa893 Pubmed: 33091122 ]
- Lsu rrna chain 4 (225 kDa, RNA from Euglena gracilis)
- 18s rrna (747 kDa, RNA from Euglena gracilis)
- 5s rrna (38 kDa, RNA from Euglena gracilis)
- Ribosomal protein el32 (16 kDa, Protein from Euglena gracilis)
- Ribosomal protein el37 (13 kDa, Protein from Euglena gracilis)
- Water (18 Da, Ligand)
- Ribosomal protein es19 (16 kDa, Protein from Euglena gracilis)
- Ribosomal protein us2 (29 kDa, Protein from Euglena gracilis)
- P-trna (24 kDa, RNA from Euglena gracilis)
- Lsu rrna chain 10 (20 kDa, RNA from Euglena gracilis)
- Lsu rrna chain 5 (170 kDa, RNA from Euglena gracilis)
- Ribosomal protein es10 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein us13 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein el18 (21 kDa, Protein from Euglena gracilis)
- Ribosomal protein es17 (16 kDa, Protein from Euglena gracilis)
- Ribosomal protein es7 (22 kDa, Protein from Euglena gracilis)
- Ribosomal protein el43 (12 kDa, Protein from Euglena gracilis)
- Ribosomal protein el31 (17 kDa, Protein from Euglena gracilis)
- Zinc ion (65 Da, Ligand)
- Ribosomal protein el22 (18 kDa, Protein from Euglena gracilis)
- Rack1 (34 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul4 (41 kDa, Protein from Euglena gracilis)
- Ribosomal protein el39 (6 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 7 (240 kDa, RNA from Euglena gracilis)
- Ribosomal protein es28 (8 kDa, Protein from Euglena gracilis)
- Ribosomal protein el36 (12 kDa, Protein from Euglena gracilis)
- Ribosomal protein us5 (27 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul15 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul14 (14 kDa, Protein from Euglena gracilis)
- Ribosomal protein es30 (7 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 11 (30 kDa, RNA from Euglena gracilis)
- Ribosomal protein us17 (19 kDa, Protein from Euglena gracilis)
- Ribosomal protein us19 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein es31 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein el41 (4 kDa, Protein from Euglena gracilis)
- Ribosomal protein el19 (29 kDa, Protein from Euglena gracilis)
- Ribosomal protein eseug1 (32 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 9 (52 kDa, RNA from Euglena gracilis)
- Ribosomal protein ul24 (16 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 1 (42 kDa, RNA from Euglena gracilis)
- 60s ribosomal protein l7a (32 kDa, Protein from Euglena gracilis)
- Ribosomal protein es24 (16 kDa, Protein from Euglena gracilis)
- Ribosomal protein us12 (15 kDa, Protein from Euglena gracilis)
- Ribosomal protein es1 (28 kDa, Protein from Euglena gracilis)
- Euglena gracilis 80s ribosome (Complex from Euglena gracilis)
- Ribosomal protein us9 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul29 (14 kDa, Protein from Euglena gracilis)
- Ribosomal protein us11 (16 kDa, Protein from Euglena gracilis)
- Ribosomal protein elegr2 (8 kDa, Protein from Euglena gracilis)
- Ribosomal protein us7 (21 kDa, Protein from Euglena gracilis)
- 60s ribosomal protein l10 (24 kDa, Protein from Euglena gracilis)
- Ribosomal protein es27 (9 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul18 (29 kDa, Protein from Euglena gracilis)
- Ribosomal protein el20 (21 kDa, Protein from Euglena gracilis)
- Ribosomal protein us14 (6 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 8 (199 kDa, RNA from Euglena gracilis)
- Ribosomal protein elegr3 (7 kDa, Protein from Euglena gracilis)
- Ribosomal protein es12 (15 kDa, Protein from Euglena gracilis)
- Ribosomal protein us4 (22 kDa, Protein from Euglena gracilis)
- Ribosomal protein es21 (10 kDa, Protein from Euglena gracilis)
- Ribosomal protein el40 (14 kDa, Protein from Euglena gracilis)
- Ribosomal protein el27 (15 kDa, Protein from Euglena gracilis)
- 5.8s rrna (52 kDa, RNA from Euglena gracilis)
- A-site trna (3 kDa, RNA from Euglena gracilis)
- Ribosomal protein ul13 (24 kDa, Protein from Euglena gracilis)
- A-trna (24 kDa, RNA from Euglena gracilis)
- Ribosomal protein ul5 (21 kDa, Protein from Euglena gracilis)
- Ribosomal protein es6 (31 kDa, Protein from Euglena gracilis)
- Ribosomal protein el29 (13 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul3 (46 kDa, Protein from Euglena gracilis)
- Ribosomal protein es8 (35 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul22 (18 kDa, Protein from Euglena gracilis)
- Ribosomal protein es26 (13 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul2 (28 kDa, Protein from Euglena gracilis)
- Ribosomal protein el33 (13 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul30 (28 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 6 (75 kDa, RNA from Euglena gracilis)
- Ribosomal protein el21 (18 kDa, Protein from Euglena gracilis)
- Ribosomal protein el34 (14 kDa, Protein from Euglena gracilis)
- Ribosomal protein el30 (12 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 2 (113 kDa, RNA from Euglena gracilis)
- Ribosomal protein us8 (14 kDa, Protein from Euglena gracilis)
- Ribosomal protein es4 (31 kDa, Protein from Euglena gracilis)
- Ribosomal protein el24 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein us10 (13 kDa, Protein from Euglena gracilis)
- Ribosomal protein us3 (24 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul23 (18 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 3 (37 kDa, RNA from Euglena gracilis)
- Ribosomal protein el42 (10 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 13 (27 kDa, RNA from Euglena gracilis)
- Ribosomal protein el14 (25 kDa, Protein from Euglena gracilis)
- Ribosomal protein es25 (13 kDa, Protein from Euglena gracilis)
- Ribosomal protein elegr1 (7 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul6 (22 kDa, Protein from Euglena gracilis)
- Ribosomal protein el38 (9 kDa, Protein from Euglena gracilis)
- Ribosomal protein us15 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein el6 (22 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 12 (18 kDa, RNA from Euglena gracilis)
- Ribosomal protein el15 (24 kDa, Protein from Euglena gracilis)
- E-trna (24 kDa, RNA from Euglena gracilis)
- Ribosomal protein el13 (25 kDa, Protein from Euglena gracilis)
Cryo-EM Structure of T. kodakarensis 70S ribosome
Resolution: 2.95 Å
EM Method: Single-particle
Fitted PDBs: 6skf
Q-score: 0.597
Sas-Chen A, Thomas JM, Matzov D, Taoka M, Nance KD, Nir R, Bryson KM, Shachar R, Liman GLS, Burkhart BW, Gamage ST, Nobe Y, Briney CA, Levy MJ, Fuchs RT, Robb GB, Hartmann J, Sharma S, Lin Q, Florens L, Washburn MP, Isobe T, Santangelo TJ, Shalev-Benami M, Meier JL, Schwartz S
Nature (2020) 583 pp. 638-643 [ Pubmed: 32555463 DOI: doi:10.1038/s41586-020-2418-2 ]
- 30s ribosomal protein s19e (17 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l37e (7 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l40e (5 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s8 (14 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s4e (27 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s7 (24 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l4 (28 kDa, Protein from Thermococcus kodakarensis)
- 23s rrna (990 kDa, RNA from Thermococcus kodakarensis)
- 50s ribosomal protein l21e (11 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l39e (6 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l18e (13 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s19 (15 kDa, Protein from Thermococcus kodakarensis)
- Predicted zinc-ribbon rna-binding protein involved in translation (7 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l2 (26 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l19e (17 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s28e (7 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l24e (8 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l29 (7 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l24 (14 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l3 (39 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s13 (17 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s3 (23 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s10 (11 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s14 type z (6 kDa, Protein from Thermococcus kodakarensis)
- 16s rrna (488 kDa, RNA from Thermococcus kodakarensis)
- 50s ribosomal protein l32e (14 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s9 (15 kDa, Protein from Thermococcus kodakarensis)
- 5s rrna (40 kDa, RNA from Thermococcus kodakarensis)
- 50s ribosomal protein l15e (22 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l37ae (9 kDa, Protein from Thermococcus kodakarensis)
- Water (18 Da, Ligand)
- 30s ribosomal protein s15 (17 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l15 (16 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l30 (17 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l31e (10 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l23 (9 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l13 (16 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l18 (22 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l44e (11 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s2 (23 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s17e (8 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s24e (11 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l5 (21 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l7ae (13 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l30e (10 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s6e (13 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s8e (14 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l6 (20 kDa, Protein from Thermococcus kodakarensis)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l22 (17 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s27e (7 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s17 (13 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l10e (21 kDa, Protein from Thermococcus kodakarensis)
- 70s ribosome from thermococcus kodakarensis (Complex from Thermococcus kodakarensis)
- Lsu ribosomal protein l41e (5 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s3ae (23 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l34e (10 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s5 (26 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l14 (15 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l18ae (9 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s12 (16 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l14e (8 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s4 (21 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s11 (15 kDa, Protein from Thermococcus kodakarensis)
Cryo-EM Structure of T. kodakarensis 70S ribosome in TkNat10 deleted strain
Resolution: 2.65 Å
EM Method: Single-particle
Fitted PDBs: 6skg
Q-score: 0.614
Sas-Chen A, Thomas JM, Matzov D, Taoka M, Nance KD, Nir R, Bryson KM, Shachar R, Liman GLS, Burkhart BW, Gamage ST, Nobe Y, Briney CA, Levy MJ, Fuchs RT, Robb GB, Hartmann J, Sharma S, Lin Q, Florens L, Washburn MP, Isobe T, Santangelo TJ, Shalev-Benami M, Meier JL, Schwartz S
Nature (2020) 583 pp. 638-643 [ Pubmed: 32555463 DOI: doi:10.1038/s41586-020-2418-2 ]
- 30s ribosomal protein s19e (17 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l37e (7 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l40e (5 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s8 (14 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s4e (27 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s7 (24 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l4 (28 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l21e (11 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l39e (6 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l18e (13 kDa, Protein from Thermococcus kodakarensis)
- 16s ribosomal rna (487 kDa, RNA from Thermococcus kodakarensis)
- 30s ribosomal protein s19 (15 kDa, Protein from Thermococcus kodakarensis)
- Predicted zinc-ribbon rna-binding protein involved in translation (7 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l2 (26 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l19e (17 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s28e (7 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l24e (8 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l29 (7 kDa, Protein from Thermococcus kodakarensis)
- Ribosomal protein el35a (11 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l24 (14 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l3 (39 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s13 (17 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s3 (23 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s10 (11 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s14 type z (6 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l32e (14 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s9 (15 kDa, Protein from Thermococcus kodakarensis)
- 23s ribosomal rna (987 kDa, RNA from Thermococcus kodakarensis)
- Predicted exosome subunit, upf0023 family (26 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l15e (22 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l37ae (9 kDa, Protein from Thermococcus kodakarensis)
- Water (18 Da, Ligand)
- 30s ribosomal protein s15 (17 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l15 (16 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l30 (17 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l31e (10 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l23 (9 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l13 (16 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l18 (22 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l44e (11 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s2 (23 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s17e (8 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s24e (11 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l5 (21 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l7ae (13 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l30e (10 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s6e (13 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s8e (14 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l6 (20 kDa, Protein from Thermococcus kodakarensis)
- 5s ribosomal rna (40 kDa, RNA from Thermococcus kodakarensis)
- Unknown ribosomal protein (2 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l22 (17 kDa, Protein from Thermococcus kodakarensis)
- Zinc ion (65 Da, Ligand)
- 30s ribosomal protein s27e (7 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s17 (13 kDa, Protein from Thermococcus kodakarensis)
- Nucleic acid-binding protein, containing c2h2 zinc-finger (5 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l10e (21 kDa, Protein from Thermococcus kodakarensis)
- 70s ribosome from thermococcus kodakarensis (Complex from Thermococcus kodakarensis)
- Lsu ribosomal protein l41e (5 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s3ae (23 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l34e (10 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s5 (26 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l14 (15 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l18ae (9 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s12 (16 kDa, Protein from Thermococcus kodakarensis)
- 50s ribosomal protein l14e (8 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s4 (21 kDa, Protein from Thermococcus kodakarensis)
- 30s ribosomal protein s11 (15 kDa, Protein from Thermococcus kodakarensis)
Cryo-EM Structure of T. kodakarensis 70S ribosome
Resolution: 2.55 Å
EM Method: Single-particle
Fitted PDBs: 6th6
Q-score: 0.622
Sas-Chen A, Thomas JM, Matzov D, Taoka M, Nance KD, Nir R, Bryson KM, Shachar R, Liman GLS, Burkhart BW, Gamage ST, Nobe Y, Briney CA, Levy MJ, Fuchs RT, Robb GB, Hartmann J, Sharma S, Lin Q, Florens L, Washburn MP, Isobe T, Santangelo TJ, Shalev-Benami M, Meier JL, Schwartz S
Nature (2020) 583 pp. 638-643 [ Pubmed: 32555463 DOI: doi:10.1038/s41586-020-2418-2 ]
- 50s ribosomal protein l24e (8 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l4 (28 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s19 (15 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s4 (21 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 5s ribosomal rna (40 kDa, RNA from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- Predicted zinc-ribbon rna-binding protein involved in translation (7 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s5 (26 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s13 (17 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l22 (17 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l37ae (9 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l37e (7 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l23 (9 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l10e (21 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l30e (10 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s28e (7 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s11 (15 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l24 (14 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s17 (13 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l34e (10 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s3ae (23 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s8e (14 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 70s ribosome from thermococcus kodakarensis (Complex from Thermococcus kodakarensis)
- 30s ribosomal protein s17e (8 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s12 (16 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s24e (11 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l13 (16 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s2 (23 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l32e (14 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- Lsu ribosomal protein l41e (5 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- Water (18 Da, Ligand)
- 50s ribosomal protein l15e (22 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l21e (11 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l14e (8 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s6e (13 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s8 (14 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l30 (17 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l18e (13 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l6 (20 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 16s ribosomal rna (486 kDa, RNA from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l44e (11 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l3 (39 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l18ae (9 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l14 (15 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l31e (10 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s7 (24 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s27e (7 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l15 (16 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s19e (17 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l29 (7 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- Zinc ion (65 Da, Ligand)
- 30s ribosomal protein s14 type z (6 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s10 (11 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l39e (6 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l2 (26 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l40e (5 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l19e (17 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s15 (17 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 23s ribosomal rna (987 kDa, RNA from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l7ae (13 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l18 (22 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s4e (27 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s9 (15 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 30s ribosomal protein s3 (23 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
- 50s ribosomal protein l5 (21 kDa, Protein from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1))
Cryo-EM structure of the small subunit of Leishmania ribosome bound to paromomycin
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 6az1
Q-score: 0.566
Shalev-Benami M, Zhang Y, Rozenberg H, Nobe Y, Taoka M, Matzov D, Zimmerman E, Bashan A, Isobe T, Jaffe CL, Yonath A, Skiniotis G
Nat Commun (2017) 8 pp. 1589-1589 [ Pubmed: 29150609 DOI: doi:10.1038/s41467-017-01664-4 ]
- Ribosomal protein s17e (16 kDa, Protein from Leishmania donovani)
- Leishmania donovani 91s ribosome ssu (Complex from Leishmania donovani)
- Ribosomal protein s8e (25 kDa, Protein from Leishmania donovani)
- Ribosomal protein s24e (15 kDa, Protein from Leishmania donovani)
- Ribosomal protein s4 (22 kDa, Protein from Leishmania donovani)
- Ribosomal protein s19e (20 kDa, Protein from Leishmania donovani)
- Ribosomal protein s12e (15 kDa, Protein from Leishmania donovani)
- Ribosomal protein s4e (30 kDa, Protein from Leishmania donovani)
- Ribosomal protein s10e (17 kDa, Protein from Leishmania donovani)
- Ribosomal protein s19 (17 kDa, Protein from Leishmania donovani)
- Ribosomal protein s31e (17 kDa, Protein from Leishmania donovani)
- Ribosomal protein s17 (19 kDa, Protein from Leishmania donovani)
- Ribosomal protein s27e (9 kDa, Protein from Leishmania donovani)
- Ribosomal protein s2 (27 kDa, Protein from Leishmania donovani)
- Mrna (4 kDa, RNA from Leishmania donovani)
- Ribosomal protein s11 (15 kDa, Protein from Leishmania donovani)
- Paromomycin (615 Da, Ligand)
- E-site trna (24 kDa, RNA from Escherichia coli)
- Ribosomal protein s8 (14 kDa, Protein from Leishmania donovani)
- Ribosomal protein s10 (13 kDa, Protein from Leishmania donovani)
- Ribosomal protein s3 (24 kDa, Protein from Leishmania donovani)
- Ribosomal protein s28e (9 kDa, Protein from Leishmania donovani)
- Water (18 Da, Ligand)
- Ribosomal protein s1e (30 kDa, Protein from Leishmania donovani)
- Ribosomal protein s12 (15 kDa, Protein from Leishmania donovani)
- Ribosomal rna 18s (710 kDa, RNA from Leishmania donovani)
- Ribosomal protein s15 (17 kDa, Protein from Leishmania donovani)
- Ribosomal protein s7e (23 kDa, Protein from Leishmania donovani)
- Ribosomal protein s21e (16 kDa, Protein from Leishmania donovani)
- Trna-phe (24 kDa, RNA from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Ribosomal protein s30e (7 kDa, Protein from Leishmania donovani)
- Ribosomal protein s26e (12 kDa, Protein from Leishmania donovani)
- Lack1 (34 kDa, Protein from Leishmania donovani)
- Ribosomal protein s25e (13 kDa, Protein from Leishmania donovani)
- Ribosomal protein s14 (6 kDa, Protein from Leishmania donovani)
- Ribosomal protein s5 (28 kDa, Protein from Leishmania donovani)
- Ribosomal protein s9 (16 kDa, Protein from Leishmania donovani)
- Ribosomal protein s13 (17 kDa, Protein from Leishmania donovani)
- Ribosomal protein s7 (21 kDa, Protein from Leishmania donovani)
- P-site trna (24 kDa, RNA from Escherichia coli)
- Ribosomal protein s6e (28 kDa, Protein from Leishmania donovani)