Cryo-EM structure of the plant 40S subunit
Resolution: 2.38 Å
EM Method: Single-particle
Fitted PDBs: 8auv
Q-score: 0.622
Smirnova J, Loerke J, Kleinau G, Schmidt A, Burger J, Meyer EH, Mielke T, Scheerer P, Bock R, Spahn CMT, Zoschke R
Nat Plants (2023) 9 pp. 987-1000 [ Pubmed: 37156858 DOI: doi:10.1038/s41477-023-01407-y ]
- Spermidine (145 Da, Ligand)
- Us2 (40s ribosomal protein sa) (35 kDa, Protein from Nicotiana tabacum)
- Es10 (40s ribosomal protein s10) (23 kDa, Protein from Nicotiana tabacum)
- Es19 (40s ribosomal protein s19) (16 kDa, Protein from Nicotiana tabacum)
- Us19 (40s ribosomal protein s15) (17 kDa, Protein from Nicotiana tabacum)
- Us13 (40s ribosomal protein s18) (17 kDa, Protein from Nicotiana tabacum)
- Us4 (40s ribosomal protein s9) (23 kDa, Protein from Nicotiana tabacum)
- Es30 (40s ribosomal protein s30) (6 kDa, Protein from Nicotiana tabacum)
- Us14 (40s ribosomal protein s29) (6 kDa, Protein from Nicotiana tabacum)
- Es12 (40s ribosomal protein s12) (15 kDa, Protein from Nicotiana tabacum)
- Es27 (40s ribosomal protein s27) (9 kDa, Protein from Nicotiana tabacum)
- Es25 (40s ribosomal protein s25) (11 kDa, Protein from Nicotiana tabacum)
- Es6 (40s ribosomal protein s6) (28 kDa, Protein from Nicotiana tabacum)
- Us5 (40s ribosomal protein s2) (30 kDa, Protein from Nicotiana tabacum)
- Es26 (40s ribosomal protein s26) (14 kDa, Protein from Nicotiana tabacum)
- Es8 (40s ribosomal protein s8) (25 kDa, Protein from Nicotiana tabacum)
- Zinc ion (65 Da, Ligand)
- Spermine (202 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- Us9 (40s ribosomal protein s16) (16 kDa, Protein from Nicotiana tabacum)
- Us8 (40s ribosomal protein s15a) (14 kDa, Protein from Nicotiana tabacum)
- 18s rrna (583 kDa, RNA from Nicotiana tabacum)
- Mrna (3 kDa, RNA from Nicotiana tabacum)
- 40s subunit of the cytosolic 80s ribosome from tobacco (Complex from Nicotiana tabacum)
- Water (18 Da, Ligand)
- Es21 (40s ribosomal protein s21) (9 kDa, Protein from Nicotiana tabacum)
- Us15 (40s ribosomal protein s13) (17 kDa, Protein from Nicotiana tabacum)
- Us17 (40s ribosomal protein s11) (17 kDa, Protein from Nicotiana tabacum)
- Rack1 (guanine nucleotide-binding protein subunit beta-like protein) (36 kDa, Protein from Nicotiana tabacum)
- Es4 (40s ribosomal protein s4) (29 kDa, Protein from Nicotiana tabacum)
- Es28 (40s ribosomal protein s28) (7 kDa, Protein from Nicotiana tabacum)
- Es17 (40s ribosomal protein s17) (16 kDa, Protein from Nicotiana tabacum)
- Es31 (ubiquitin-40s ribosomal protein s27a) (17 kDa, Protein from Nicotiana tabacum)
- Es7 (40s ribosomal protein s7) (22 kDa, Protein from Nicotiana tabacum)
- Us11 (40s ribosomal protein s14) (16 kDa, Protein from Nicotiana tabacum)
- Es24 (40s ribosomal protein s24) (15 kDa, Protein from Nicotiana tabacum)
- Es1 (40s ribosomal protein s3a) (29 kDa, Protein from Nicotiana tabacum)
- Magnesium ion (24 Da, Ligand)
- Us7 (40s ribosomal protein s5) (23 kDa, Protein from Nicotiana tabacum)
- Us12 (40s ribosomal protein s23) (15 kDa, Protein from Nicotiana tabacum)
- Us10 (40s ribosomal protein s20) (13 kDa, Protein from Nicotiana tabacum)
- Us3 (40s ribosomal protein s3) (27 kDa, Protein from Nicotiana tabacum)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 6gz4
Q-score: 0.386
Flis J, Holm M, Rundlet EJ, Loerke J, Hilal T, Dabrowski M, Burger J, Mielke T, Blanchard SC, Spahn CMT, Budkevich TV
Cell Rep (2018) 25 pp. 2676-2688.e7 [ Pubmed: 30517857 DOI: doi:10.1016/j.celrep.2018.11.040 ]
- 28s ribosomal rna (1 MDa, RNA from Oryctolagus cuniculus)
- Ribosomal protein us13 (16 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us2 (24 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es19 (15 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us7 (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el40 (5 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es4 (28 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el6 (22 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul11 (16 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us9 (15 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul10 (22 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul22 (17 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul6 (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul23 (13 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul30 (27 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el38 (8 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul4 (41 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul16 (24 kDa, Protein from Oryctolagus cuniculus)
- Ap/p-site trna (24 kDa, RNA from Oryctolagus cuniculus)
- Ribosomal protein us10 (11 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul18 (34 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el31 (12 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el34 (12 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es26 (11 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us19 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul14 (13 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es1 (24 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul1 (24 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el15 (24 kDa, Protein from Oryctolagus cuniculus)
- Zinc ion (65 Da, Ligand)
- Ribosomal protein us3 (24 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el30 (11 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el28 (13 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el24 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el33 (12 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el36 (11 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el8 (26 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul3 (45 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es12 (13 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us4 (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us11 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us12 (15 kDa, Protein from Oryctolagus cuniculus)
- Eukaryotic elongation factor 2 (eef2) (95 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es17 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el13 (23 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el20 (20 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul5 (19 kDa, Protein from Oryctolagus cuniculus)
- Pe/e-site-trna (24 kDa, RNA from Oryctolagus cuniculus)
- 18s ribosomal rna (551 kDa, RNA from Oryctolagus cuniculus)
- Ribosomal protein es21 (8 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us10 (9 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es31 (8 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul15 (16 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es28 (24 kDa, Protein from Oryctolagus cuniculus)
- 5s ribosomal rna (38 kDa, RNA from Oryctolagus cuniculus)
- Ribosomal protein us14 (6 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul24 (15 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us8 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el14 (16 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es7 (20 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul29 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el29 (7 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el18 (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el39 (6 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el43 (10 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es8 (24 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es24 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es10 (11 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el19 (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el32 (15 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es6 (26 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us15 (17 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el37 (9 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el21 (18 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul13 (22 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es27 (9 kDa, Protein from Oryctolagus cuniculus)
- 5.8s ribosomal rna (50 kDa, RNA from Oryctolagus cuniculus)
- Ti-post-2 (4 MDa, Complex from Oryctolagus cuniculus)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- Ribosomal protein us17 (17 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein rack 1 (34 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein ul2 (27 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el42 (12 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es28 (7 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el27 (15 kDa, Protein from Oryctolagus cuniculus)
- Magnesium ion (24 Da, Ligand)
- Ribosomal protein es30 (6 kDa, Protein from Oryctolagus cuniculus)
- Mrna (3 kDa, RNA from Oryctolagus cuniculus)
- Ribosomal protein el22 (11 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el41 (3 kDa, Protein from Oryctolagus cuniculus)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6gz5
Q-score: 0.38
Flis J, Holm M, Rundlet EJ, Loerke J, Hilal T, Dabrowski M, Burger J, Mielke T, Blanchard SC, Spahn CMT, Budkevich TV
Cell Rep (2018) 25 pp. 2676-2688.e7 [ Pubmed: 30517857 DOI: doi:10.1016/j.celrep.2018.11.040 ]
- Ribosomal protein us9 (15 kDa, Protein from rabbit)
- Ribosomal protein us15 (17 kDa, Protein from rabbit)
- Ribosomal protein ul29 (14 kDa, Protein from rabbit)
- Ribosomal protein ul3 (45 kDa, Protein from rabbit)
- Ribosomal protein ul1 (24 kDa, Protein from rabbit)
- Ribosomal protein el14 (16 kDa, Protein from rabbit)
- Ribosomal protein el15 (24 kDa, Protein from rabbit)
- Ribosomal protein el36 (11 kDa, Protein from rabbit)
- Ribosomal protein es8 (24 kDa, Protein from rabbit)
- Ribosomal protein es27 (9 kDa, Protein from rabbit)
- Ribosomal protein el27 (15 kDa, Protein from rabbit)
- 18s ribosomal rna (551 kDa, RNA from rabbit)
- Ribosomal protein el29 (7 kDa, Protein from rabbit)
- Ribosomal protein el28 (13 kDa, Protein from rabbit)
- Ribosomal protein us3 (24 kDa, Protein from rabbit)
- P/p-site-trna (24 kDa, RNA from rabbit)
- Ribosomal protein us5 (24 kDa, Protein from rabbit)
- Ribosomal protein es17 (14 kDa, Protein from rabbit)
- Ribosomal protein el33 (12 kDa, Protein from rabbit)
- Ribosomal protein el21 (18 kDa, Protein from rabbit)
- Ribosomal protein es26 (11 kDa, Protein from rabbit)
- Ribosomal protein ul4 (41 kDa, Protein from rabbit)
- Ribosomal protein el34 (12 kDa, Protein from rabbit)
- Eukaryotic elongation factor 2 (eef2) (95 kDa, Protein from rabbit)
- Translocation intermediate ti-post-3 (4 MDa, Complex)
- Ribosomal protein us10 (11 kDa, Protein from rabbit)
- Ribosomal protein ul13 (22 kDa, Protein from rabbit)
- Ribosomal protein el40 (5 kDa, Protein from rabbit)
- Ribosomal protein es21 (8 kDa, Protein from rabbit)
- 5.8s ribosomal rna (50 kDa, RNA from rabbit)
- Zinc ion (65 Da, Ligand)
- Ribosomal protein us11 (14 kDa, Protein from rabbit)
- Translocation intermediate ti-post-3 (Complex from Saccharomyces cerevisiae)
- Ribosomal protein ul2 (27 kDa, Protein from rabbit)
- 28s ribosomal rna (1 MDa, RNA from rabbit)
- Ribosomal protein es25 (9 kDa, Protein from rabbit)
- Ribosomal protein el31 (12 kDa, Protein from rabbit)
- Ribosomal protein us8 (14 kDa, Protein from rabbit)
- Ribosomal protein ul30 (27 kDa, Protein from rabbit)
- Ribosomal protein el19 (21 kDa, Protein from rabbit)
- Ribosomal protein el13 (23 kDa, Protein from rabbit)
- Ribosomal protein el37 (9 kDa, Protein from rabbit)
- Ribosomal protein el6 (22 kDa, Protein from rabbit)
- Ribosomal protein us12 (15 kDa, Protein from rabbit)
- Ribosomal protein el32 (15 kDa, Protein from rabbit)
- Ribosomal protein el43 (10 kDa, Protein from rabbit)
- Ribosomal protein el30 (11 kDa, Protein from rabbit)
- Ribosomal protein us2 (24 kDa, Protein from rabbit)
- Ribosomal protein ul6 (21 kDa, Protein from rabbit)
- Ribosomal protein el24 (14 kDa, Protein from rabbit)
- 5s ribosomal rna (38 kDa, RNA from rabbit)
- Ribosomal protein es4 (28 kDa, Protein from rabbit)
- Ribosomal protein us13 (16 kDa, Protein from rabbit)
- Ribosomal protein ul11 (16 kDa, Protein from rabbit)
- Ribosomal protein us17 (17 kDa, Protein from rabbit)
- Ribosomal protein ul10 (22 kDa, Protein from rabbit)
- Ribosomal protein es10 (11 kDa, Protein from rabbit)
- Ribosomal protein us7 (21 kDa, Protein from rabbit)
- E/e-site-trna (24 kDa, RNA from baker's yeast)
- Translocation intermediate ti-post-3 (Complex from Enterobacteria phage SP6)
- Ribosomal protein el18 (21 kDa, Protein from rabbit)
- Ribosomal protein es24 (14 kDa, Protein from rabbit)
- Ribosomal protein es30 (6 kDa, Protein from rabbit)
- Translocation intermediate ti-post-3 (Complex from Oryctolagus cuniculus)
- Ribosomal protein ul16 (24 kDa, Protein from rabbit)
- Mrna (3 kDa, RNA from Enterobacteria phage SP6)
- Ribosomal protein ul24 (15 kDa, Protein from rabbit)
- Ribosomal protein ul22 (17 kDa, Protein from rabbit)
- Ribosomal protein es12 (13 kDa, Protein from rabbit)
- Ribosomal protein ul5 (19 kDa, Protein from rabbit)
- Ribosomal protein ul18 (34 kDa, Protein from rabbit)
- Ribosomal protein us4 (21 kDa, Protein from rabbit)
- Ribosomal protein ul15 (16 kDa, Protein from rabbit)
- Ribosomal protein es6 (26 kDa, Protein from rabbit)
- Ribosomal protein ul14 (13 kDa, Protein from rabbit)
- Ribosomal protein rack 1 (34 kDa, Protein from rabbit)
- Ribosomal protein el8 (26 kDa, Protein from rabbit)
- Ribosomal protein el22 (11 kDa, Protein from rabbit)
- Ribosomal protein us19 (14 kDa, Protein from rabbit)
- Ribosomal protein es19 (15 kDa, Protein from rabbit)
- Ribosomal protein el41 (3 kDa, Protein from rabbit)
- Ribosomal protein es7 (20 kDa, Protein from rabbit)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- Ribosomal protein el39 (6 kDa, Protein from rabbit)
- Ribosomal protein es1 (24 kDa, Protein from rabbit)
- Ribosomal protein es28 (7 kDa, Protein from rabbit)
- Ribosomal protein ul23 (13 kDa, Protein from rabbit)
- Ribosomal protein us14 (6 kDa, Protein from Enterobacteria phage SP6)
- Ribosomal protein el20 (20 kDa, Protein from rabbit)
- Ribosomal protein el42 (12 kDa, Protein from rabbit)
- Magnesium ion (24 Da, Ligand)
- Ribosomal protein es31 (8 kDa, Protein from rabbit)
- Ribosomal protein el38 (8 kDa, Protein from rabbit)