Structure of the translating Neurospora crassa ribosome arrested by cycloheximide
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 7r81
Q-score: 0.539
Shen L, Su Z, Yang K, Wu C, Becker T, Bell-Pedersen D, Zhang J, Sachs MS
PNAS (2021) 118 [ DOI: doi:10.1073/pnas.2111862118 Pubmed: 34815343 ]
- 4-{(2r)-2-[(1s,3s,5s)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione (281 Da, Ligand)
- Trna (Complex from Neurospora crassa)
- 60s ribosomal protein l29 (7 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l6 (22 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l25 (17 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s21 (9 kDa, Protein from Neurospora crassa)
- Probable 40s ribosomal protein s10-b (18 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l2 (27 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l16 (26 kDa, Protein from Neurospora crassa)
- 26s rrna (1 MDa, RNA from Neurospora crassa)
- 60s ribosomal protein l17 (20 kDa, Protein from Neurospora crassa)
- Spermidine (145 Da, Ligand)
- 60s ribosomal protein l3 (44 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l28 (16 kDa, Protein from Neurospora crassa)
- Ribosomal protein l37 (10 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s30 (6 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l32 (15 kDa, Protein from Neurospora crassa)
- Nascent peptide (Complex from Neurospora crassa)
- 40s ribosomal protein s28 (7 kDa, Protein from Neurospora crassa)
- Ribosomal protein l19 (22 kDa, Protein from Neurospora crassa)
- Nascent peptide (358 Da, Protein from Neurospora crassa)
- Ribosomal protein srp1 (18 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l9 (21 kDa, Protein from Neurospora crassa)
- Ribosomal protein l26 (15 kDa, Protein from Neurospora crassa)
- 18s rrna (578 kDa, RNA from Neurospora crassa)
- 60s ribosomal protein l5 (34 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s25 (10 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein (14 kDa, Protein from Neurospora crassa)
- Ubiquitin-40s ribosomal protein s27a (17 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s20 (13 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s19 (16 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l20 (20 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s17 (16 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s12 (16 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l4-a (38 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l35 (14 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l18 (20 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s29 (6 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s18 (17 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l27 (el27) (15 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l38 (9 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s23 (15 kDa, Protein from Neurospora crassa)
- Structure of the translating neurospora crassa ribosome arrested by cycloheximide (Complex)
- 5.8s rrna (50 kDa, RNA from Neurospora crassa)
- 40s ribosomal protein s0 (31 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s11 (18 kDa, Protein from Neurospora crassa)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l24 (17 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s7 (22 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s16 (15 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s24 (15 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s26e (13 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s2 (28 kDa, Protein from Neurospora crassa)
- Hypothetical protein ncu16635 (el41) (3 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s27 (8 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s14 (us11) (16 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s4 (29 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l30 (11 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l39 (6 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l34 (13 kDa, Protein from Neurospora crassa)
- 40s ribosomal subunit (Complex from Neurospora crassa)
- Guanine nucleotide-binding protein subunit beta-like protein (35 kDa, Protein from Neurospora crassa)
- 5s rrna (38 kDa, RNA from Neurospora crassa)
- 40s ribosomal protein s22 (14 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l10 (25 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s9 (21 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s6 (27 kDa, Protein from Neurospora crassa)
- Ribosomal protein l14 (15 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l40 (6 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l22 (14 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s1 (29 kDa, Protein from Neurospora crassa)
- 60s ribosomal subunit (Complex from Neurospora crassa)
- 60s ribosomal protein l33 (12 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l11 (20 kDa, Protein from Neurospora crassa)
- Ribosomal_l28e domain-containing protein (16 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l36 (11 kDa, Protein from Neurospora crassa)
- Ribosomal protein s12 (17 kDa, Protein from Neurospora crassa)
- Trna (24 kDa, RNA from Neurospora crassa)
- 40s ribosomal protein s13 (16 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l23 (14 kDa, Protein from Neurospora crassa)
- Mrna (5 kDa, RNA from Neurospora crassa)
- 40s ribosomal protein s8 (23 kDa, Protein from Neurospora crassa)
- 40s ribosomal protein s5 (23 kDa, Protein from Neurospora crassa)
- Cytoplasmic ribosomal protein 10 (28 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l15 (24 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l8 (29 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l43 (10 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l44 (11 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l7 (28 kDa, Protein from Neurospora crassa)
- Mrna (Complex from Neurospora crassa)
- 60s ribosomal protein l13 (23 kDa, Protein from Neurospora crassa)
K.lactis 80S ribosome with p/PE tRNA and eIF5B
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 6uz7
Q-score: 0.39
PNAS (2020) 117 pp. 1429-1437 [ Pubmed: 31900355 DOI: doi:10.1073/pnas.1916436117 ]
- Klla0f23265p (108 kDa, Protein from Kluyveromyces lactis)
- Klla0a07194p (15 kDa, Protein from Kluyveromyces lactis)
- Klla0c08371p (14 kDa, Protein from Kluyveromyces lactis)
- Klla0b01562p (17 kDa, Protein from Kluyveromyces lactis)
- Klla0f25542p (13 kDa, Protein from Kluyveromyces lactis)
- Klla0f05247p (14 kDa, Protein from Kluyveromyces lactis)
- Zinc ion (65 Da, Ligand)
- Klla0b08173p (12 kDa, Protein from Kluyveromyces lactis)
- Ubiquitin fusion protein (14 kDa, Protein from Kluyveromyces lactis)
- Rna (121-mer) (38 kDa, RNA from Kluyveromyces lactis)
- Klla0d08305p (26 kDa, Protein from Kluyveromyces lactis)
- Gdpcp (12 kDa, Protein from Kluyveromyces lactis)
- Klla0b01474p (15 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s28 (7 kDa, Protein from Kluyveromyces lactis)
- Klla0b07139p (39 kDa, Protein from Kluyveromyces lactis)
- Klla0f04675p (22 kDa, Protein from Kluyveromyces lactis)
- Klla0f18040p (16 kDa, Protein from Kluyveromyces lactis)
- 60s ribosomal protein l3 (43 kDa, Protein from Kluyveromyces lactis)
- 60s ribosomal protein l36 (11 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s30 (7 kDa, Protein from Kluyveromyces lactis)
- Rpl28 (16 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s21 (9 kDa, Protein from Kluyveromyces lactis)
- 60s ribosomal protein l44 (12 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s8 (22 kDa, Protein from Kluyveromyces lactis)
- 25s ribosomal rna (1 MDa, RNA from Kluyveromyces lactis)
- Phosphomethylphosphonic acid guanylate ester (521 Da, Ligand)
- Ribosomal protein l15 (24 kDa, Protein from Kluyveromyces lactis)
- Rna (76-mer) (24 kDa, RNA from Saccharomyces cerevisiae)
- 40s ribosomal protein s27 (8 kDa, Protein from Kluyveromyces lactis)
- Klla0e06843p (14 kDa, Protein from Kluyveromyces lactis)
- Klla0a10483p (17 kDa, Protein from Kluyveromyces lactis)
- Klla0a07227p (20 kDa, Protein from Kluyveromyces lactis)
- Klla0f09812p (27 kDa, Protein from Kluyveromyces lactis)
- 60s ribosomal protein l30 (11 kDa, Protein from Kluyveromyces lactis)
- Klla0b13409p (15 kDa, Protein from Kluyveromyces lactis)
- Klla0c18216p (8 kDa, Protein from Kluyveromyces lactis)
- 60s ribosomal protein l29 (7 kDa, Protein from Kluyveromyces lactis)
- Klla0e12453p (21 kDa, Protein from Kluyveromyces lactis)
- Ribosomal protein (24 kDa, Protein from Kluyveromyces lactis)
- Klla0e00573p (28 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s12 (14 kDa, Protein from Kluyveromyces lactis)
- Klla0d07405p (12 kDa, Protein from Kluyveromyces lactis)
- 60s acidic ribosomal protein p0 (33 kDa, Protein from Kluyveromyces lactis)
- Ubiquitin-40s ribosomal protein s27a (17 kDa, Protein from Kluyveromyces lactis)
- 60s ribosomal protein l13 (22 kDa, Protein from Kluyveromyces lactis)
- Klla0d16027p (27 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s25 (12 kDa, Protein from Kluyveromyces lactis)
- Klla0e23673p (21 kDa, Protein from Kluyveromyces lactis)
- Klla0d06941p (33 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s26 (13 kDa, Protein from Kluyveromyces lactis)
- 60s ribosomal protein l41 (3 kDa, Protein from Kluyveromyces lactis)
- Klla0f04499p (21 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s7 (21 kDa, Protein from Kluyveromyces lactis)
- 60s ribosomal protein l25 (15 kDa, Protein from Kluyveromyces lactis)
- Klla0e12277p (35 kDa, Protein from Kluyveromyces lactis)
- Klla0d05643p (25 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s4 (29 kDa, Protein from Kluyveromyces lactis)
- Kluyveromyces lactis 80s ribosome in complex with eif5b (Complex from Kluyveromyces lactis)
- Klla0f07843p (15 kDa, Protein from Kluyveromyces lactis)
- Klla0e03455p (15 kDa, Protein from Kluyveromyces lactis)
- Klla0d05181p (13 kDa, Protein from Kluyveromyces lactis)
- Klla0a06336p (20 kDa, Protein from Kluyveromyces lactis)
- Klla0b02937p (13 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s6 (26 kDa, Protein from Kluyveromyces lactis)
- Klla0e05941p (9 kDa, Protein from Kluyveromyces lactis)
- 5.8s ribosomal rna (910 kDa, RNA from Kluyveromyces lactis)
- Klla0b04686p (20 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s1 (28 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s24 (15 kDa, Protein from Kluyveromyces lactis)
- Klla0f08261p (19 kDa, Protein from Kluyveromyces lactis)
- Klla0b05742p (14 kDa, Protein from Kluyveromyces lactis)
- Ribosomal protein l37 (9 kDa, Protein from Kluyveromyces lactis)
- Klla0d03410p (27 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s0 (28 kDa, Protein from Kluyveromyces lactis)
- 60s ribosomal protein l24 (17 kDa, Protein from Kluyveromyces lactis)
- Klla0e23651p (18 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s16 (15 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s29 (6 kDa, Protein from Kluyveromyces lactis)
- Klla0e06997p (14 kDa, Protein from Kluyveromyces lactis)
- 18s ribosomal rna (579 kDa, RNA from Kluyveromyces lactis)
- 40s ribosomal protein s22 (14 kDa, Protein from Kluyveromyces lactis)
- 60s ribosomal protein l39 (6 kDa, Protein from Kluyveromyces lactis)
- 40s ribosomal protein s14 (14 kDa, Protein from Kluyveromyces lactis)
- 60s ribosomal protein l20 (20 kDa, Protein from Kluyveromyces lactis)
- Rps23 (16 kDa, Protein from Kluyveromyces lactis)
- Klla0d10659p (25 kDa, Protein from Kluyveromyces lactis)
Structure and assembly model for the Trypanosoma cruzi 60S ribosomal subunit
Resolution: 2.54 Å
EM Method: Single-particle
Fitted PDBs: 5t5h
Q-score: 0.569
Liu Z, Gutierrez-Vargas C, Wei J, Grassucci RA, Ramesh M, Espina N, Sun M, Tutuncuoglu B, Madison-Antenucci S, Woolford JL, Tong L, Frank J
PNAS (2016) 113 pp. 12174-12179 [ Pubmed: 27791004 DOI: doi:10.1073/pnas.1614594113 ]
- 60s ribosomal protein l2 (26 kDa, Protein from Trypanosoma cruzi)
- Ribosomal protein l36 (10 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l4 (37 kDa, Protein from Trypanosoma cruzi)
- Rna large subunit alpha (414 kDa, RNA from Trypanosoma cruzi)
- 60s ribosomal protein l44 (10 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l5 (28 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l6 (19 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal subunit protein l31 (19 kDa, Protein from Trypanosoma cruzi)
- Ribosomal protein l7a-like protein (25 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l26 (13 kDa, Protein from Trypanosoma cruzi)
- Zinc ion (65 Da, Ligand)
- Trypanosoma cruzi 60s ribosomal subunit (Complex from Trypanosoma cruzi)
- 60s ribosomal protein l37a (9 kDa, Protein from Trypanosoma cruzi)
- Srrna1 (46 kDa, RNA from Trypanosoma cruzi)
- 60s ribosomal protein l11 (7 kDa, Protein from Trypanosoma cruzi)
- Srrna3 (14 kDa, RNA from Trypanosoma cruzi)
- Water (18 Da, Ligand)
- Ribosomal protein l19-like protein (18 kDa, Protein from Trypanosoma cruzi)
- Ribosomal protein l15 (24 kDa, Protein from Trypanosoma cruzi)
- Ribosomal protein l29 (7 kDa, Protein from Trypanosoma cruzi)
- Rna large subunit beta (303 kDa, RNA from Trypanosoma cruzi)
- 60s ribosomal protein l34 (12 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l35 (14 kDa, Protein from Trypanosoma cruzi)
- Ribosomal protein l37 (9 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l27a/l29 (16 kDa, Protein from Trypanosoma cruzi)
- Ribosomal protein l21e (60s) (16 kDa, Protein from Trypanosoma cruzi)
- 5s rrna (38 kDa, RNA from Trypanosoma cruzi)
- Srrna4 (29 kDa, RNA from Trypanosoma cruzi)
- 60s ribosomal protein l17 (17 kDa, Protein from Trypanosoma cruzi)
- Ribosomal protein l27 (15 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l32 (13 kDa, Protein from Trypanosoma cruzi)
- Ribosomal protein l39 (6 kDa, Protein from Trypanosoma cruzi)
- 40s ribosomal protein l14 (17 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l13a (23 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l13 (23 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l28 (13 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l22 (11 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l23 (13 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l18 (21 kDa, Protein from Trypanosoma cruzi)
- Ribosomal protein l24 (7 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l23a (13 kDa, Protein from Trypanosoma cruzi)
- Ribosomal protein l38 (6 kDa, Protein from Trypanosoma cruzi)
- Ribosomal protein l35a (15 kDa, Protein from Trypanosoma cruzi)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l30 (7 kDa, Protein from Trypanosoma cruzi)
- Srrna2 (39 kDa, RNA from Trypanosoma cruzi)
- 60s ribosomal protein l18a (20 kDa, Protein from Trypanosoma cruzi)
- 5.8s rrna (54 kDa, RNA from Trypanosoma cruzi)
- Ribosomal protein l13 (45 kDa, Protein from Trypanosoma cruzi)
- 60s ribosomal protein l7 (24 kDa, Protein from Trypanosoma cruzi)