55S mammalian mitochondrial ribosome with mtRRF (pre) and tRNA(P/E)
Resolution: 4.6 Å
EM Method: Single-particle
Fitted PDBs: 7nsi
Q-score: 0.228
Kummer E, Schubert KN, Schoenhut T, Scaiola A, Ban N
Mol Cell (2021) 81 pp. 2566-2582.e6 [ Pubmed: 33878294 DOI: doi:10.1016/j.molcel.2021.03.042 ]
- Mrna (1 kDa, RNA from Sus scrofa)
- Death associated protein 3 (46 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l15, mitochondrial (33 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l43, mitochondrial isoform x2 (17 kDa, Protein from Sus scrofa)
- 16s rrna (504 kDa, RNA from Sus scrofa)
- Mitochondrial ribosomal protein s27 (51 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l10, mitochondrial isoform a (29 kDa, Protein from Sus scrofa)
- Ribosome-recycling factor, mitochondrial (28 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s31, mitochondrial (44 kDa, Protein from Sus scrofa)
- Water (18 Da, Ligand)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Sus scrofa)
- Ml53 (12 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l33, mitochondrial (7 kDa, Protein from Sus scrofa)
- 39s ribosomal protein s30, mitochondrial (49 kDa, Protein from Sus scrofa)
- Pentatricopeptide repeat domain 3,pentatricopeptide repeat domain 3,ms39,pentatricopeptide repeat domain 3,pentatricopeptide repeat domain 3 (76 kDa, Protein from Sus scrofa)
- Trna (p/e) (21 kDa, RNA from Sus scrofa)
- 28s ribosomal protein s18c, mitochondrial isoform 1 (16 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- 39s ribosomal protein l18, mitochondrial isoform 1 (20 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l58 (23 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l21, mitochondrial isoform d (23 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l35, mitochondrial (21 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l28, mitochondrial (30 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l51, mitochondrial (15 kDa, Protein from Sus scrofa)
- Bl32m (21 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s23 (21 kDa, Protein from Sus scrofa)
- Guanosine-5'-monophosphate (363 Da, Ligand)
- Interferon alpha-inducible protein 6 (19 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s5, mitochondrial isoform x2 (48 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l52, mitochondrial (13 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s9, mitochondrial (45 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s15, mitochondrial (27 kDa, Protein from Sus scrofa)
- Ul14m (15 kDa, Protein from Sus scrofa)
- Spermine (202 Da, Ligand)
- 39s ribosomal protein l50, mitochondrial (22 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l59, mitochondrial (25 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l9, mitochondrial (30 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l24, mitochondrial isoform x1 (24 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s24, mitochondrial (18 kDa, Protein from Sus scrofa)
- Ml42 (16 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s18a (22 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l48, mitochondrial (29 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s34 (25 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s11 (20 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s26, mitochondrial (23 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l37, mitochondrial (47 kDa, Protein from Sus scrofa)
- 55s mammalian mitochondrial ribosome with mtrrf (pre) and trna(p/e) (Complex)
- 39s ribosomal protein l19, mitochondrial (33 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l27, mitochondrial (15 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l34, mitochondrial (10 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l40 (24 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l45 (35 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l57 (12 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s21, mitochondrial (10 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l30, mitochondrial (18 kDa, Protein from Sus scrofa)
- Ict1 (43 kDa, Protein from Sus scrofa)
- Cp trnaphe (23 kDa, RNA from Sus scrofa)
- Tgs domain-containing protein (38 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l13, mitochondrial (20 kDa, Protein from Sus scrofa)
- Mitoribosomal protein us12m, mrps12 (15 kDa, Protein from Sus scrofa)
- 12s rrna (308 kDa, RNA from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- 39s ribosomal protein l46, mitochondrial (32 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l44, mitochondrial (37 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l55 (15 kDa, Protein from Sus scrofa)
- Ribosomal_l2_c domain-containing protein (33 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s2, mitochondrial (31 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s35, mitochondrial isoform 1 (37 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s6 (30 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s14, mitochondrial (15 kDa, Protein from Sus scrofa)
- Coiled-coil-helix-coiled-coil-helix domain containing 1 (13 kDa, Protein from Sus scrofa)
- Ribosomal protein (10 kDa, Protein from Sus scrofa)
- Us17m (14 kDa, Protein from Sus scrofa)
- 55s mammalian mitochondrial ribosome (Complex from Sus scrofa)
- Aurora kinase a interacting protein 1 (22 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l16, mitochondrial (28 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l22, mitochondrial (24 kDa, Protein from Sus scrofa)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Mitochondrial ribosomal protein s33 (12 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l41 (15 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l54, mitochondrial (15 kDa, Protein from Sus scrofa)
- Unknown (1 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s22 (43 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from Sus scrofa)
- Ribosome-recycling factor, mitochondrial (Complex from Homo sapiens)
- Mitochondrial ribosomal protein l47 (30 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l11, mitochondrial isoform a (20 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l12 (21 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l17, mitochondrial (19 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s28, mitochondrial (21 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s10, mitochondrial (23 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l20, mitochondrial isoform 1 (17 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l4 (33 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l23, mitochondrial (17 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l38, mitochondrial (44 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l49, mitochondrial (18 kDa, Protein from Sus scrofa)
55S mammalian mitochondrial ribosome with mtEFG1 and two tRNAMet (TI-POST)
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 6ydw
Q-score: 0.31
EMBO J (2020) 39 pp. e104820-e104820 [ DOI: doi:10.15252/embj.2020104820 Pubmed: 32602580 ]
- Uncharacterized protein (25 kDa, Protein from Sus scrofa)
- 55s s. scrofa mitochondrial ribosome in complex with mtefg1, two trna-met and cugaug mrna (2 MDa, Complex)
- Uncharacterized protein (37 kDa, Protein from Sus scrofa)
- Death associated protein 3 (46 kDa, Protein from Sus scrofa)
- Uncharacterized protein (18 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s27 (51 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s18c (16 kDa, Protein from Sus scrofa)
- Trnamet and mrna (Complex from Homo sapiens)
- Uncharacterized protein (33 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l27 (15 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l10 (29 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l38 (44 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s25 (19 kDa, Protein from Sus scrofa)
- Uncharacterized protein (13 kDa, Protein from Sus scrofa)
- Water (18 Da, Ligand)
- Ml53 (12 kDa, Protein from Sus scrofa)
- Uncharacterized protein (24 kDa, Protein from Sus scrofa)
- Unknown peptide (1 kDa, Protein from Sus scrofa)
- Ms33 (12 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s5 (48 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s12 (15 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l20 (17 kDa, Protein from Sus scrofa)
- Trnamet (22 kDa, RNA from Homo sapiens)
- 39s ribosomal protein s30, mitochondrial (49 kDa, Protein from Sus scrofa)
- Us11m (20 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Uncharacterized protein (23 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s2 (31 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l9 (30 kDa, Protein from Sus scrofa)
- Guanosine-5'-monophosphate (363 Da, Ligand)
- Mitochondrial ribosomal protein l34 (10 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s14 (15 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s10 (23 kDa, Protein from Sus scrofa)
- Uncharacterized protein (21 kDa, Protein from Sus scrofa)
- Uncharacterized protein (45 kDa, Protein from Sus scrofa)
- Uncharacterized protein (33 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l50 (22 kDa, Protein from Sus scrofa)
- Spermine (202 Da, Ligand)
- Mitochondrial ribosomal protein l46 (32 kDa, Protein from Sus scrofa)
- N-formylmethionine (177 Da, Ligand)
- Mitochondrial ribosomal protein s35 (37 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s18a (22 kDa, Protein from Sus scrofa)
- Ms23 (21 kDa, Protein from Sus scrofa)
- 39s ribosomal protein l48, mitochondrial (29 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l35 (21 kDa, Protein from Sus scrofa)
- Uncharacterized protein (15 kDa, Protein from Sus scrofa)
- Ms34 (25 kDa, Protein from Sus scrofa)
- Bs21m (10 kDa, Protein from Sus scrofa)
- Cp trna-phe (23 kDa, RNA from Sus scrofa)
- Mitochondrial ribosomal protein s24 (18 kDa, Protein from Sus scrofa)
- Uncharacterized protein (7 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s31 (44 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l37 (47 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l11 (20 kDa, Protein from Sus scrofa)
- Uncharacterized protein (16 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l45 (35 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l57 (12 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l39 (38 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l43 (17 kDa, Protein from Sus scrofa)
- Uncharacterized protein (24 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l51 (15 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l18 (20 kDa, Protein from Sus scrofa)
- Ms37 (13 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l21 (23 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Mitochondrial ribosomal protein l19 (33 kDa, Protein from Sus scrofa)
- Mitoribosomal protein ms28, mrps28 (21 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Sus scrofa)
- Uncharacterized protein (20 kDa, Protein from Sus scrofa)
- Mrna (1 kDa, RNA from Homo sapiens)
- Uncharacterized protein (15 kDa, Protein from Sus scrofa)
- 55s s. scrofa mitochondrial ribosome (Complex from Sus scrofa)
- Uncharacterized protein (17 kDa, Protein from Sus scrofa)
- Uncharacterized protein (30 kDa, Protein from Sus scrofa)
- Ict1 (38 kDa, Protein from Sus scrofa)
- Elongation factor g, mitochondrial (Complex from Homo sapiens)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- Ribosomal protein (10 kDa, Protein from Sus scrofa)
- Uncharacterized protein (19 kDa, Protein from Sus scrofa)
- Us17m (14 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s7 (28 kDa, Protein from Sus scrofa)
- Aurora kinase a interacting protein 1 (22 kDa, Protein from Sus scrofa)
- Elongation factor g, mitochondrial (80 kDa, Protein from Homo sapiens)
- Mrpl34 (18 kDa, Protein from Sus scrofa)
- Uncharacterized protein (15 kDa, Protein from Sus scrofa)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Mitochondrial ribosomal protein l41 (15 kDa, Protein from Sus scrofa)
- 12s rrna (5 MDa, RNA from Sus scrofa)
- Mitochondrial ribosomal protein s26 (23 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein s22 (43 kDa, Protein from Sus scrofa)
- Ms39 (78 kDa, Protein from Sus scrofa)
- 28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l47 (30 kDa, Protein from Sus scrofa)
- Uncharacterized protein (24 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l12 (21 kDa, Protein from Sus scrofa)
- Uncharacterized protein (28 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l28 (30 kDa, Protein from Sus scrofa)
- Us15m (27 kDa, Protein from Sus scrofa)
- Mitochondrial ribosomal protein l4 (33 kDa, Protein from Sus scrofa)
Structure of the yeast mitochondrial ribosome - Class C
Resolution: 4.97 Å
EM Method: Single-particle
Fitted PDBs: 5mrf
Q-score: 0.241
Desai N, Brown A, Amunts A, Ramakrishnan V
Science (2017) 355 pp. 528-531 [ Pubmed: 28154081 DOI: doi:10.1126/science.aal2415 ]
- Ml67 (25 kDa, Protein from Saccharomyces cerevisiae)
- Ms46 (18 kDa, Protein from Saccharomyces cerevisiae)
- Ul4m (28 kDa, Protein from Saccharomyces cerevisiae)
- Ul22m (25 kDa, Protein from Saccharomyces cerevisiae)
- Bl28m (25 kDa, Protein from Saccharomyces cerevisiae)
- Bs1m (39 kDa, Protein from Saccharomyces cerevisiae)
- Us5m (33 kDa, Protein from Saccharomyces cerevisiae)
- Bl33m (7 kDa, Protein from Saccharomyces cerevisiae)
- Us3m (47 kDa, Protein from Saccharomyces cerevisiae)
- Bl17m (26 kDa, Protein from Saccharomyces cerevisiae)
- Ul29m (26 kDa, Protein from Saccharomyces cerevisiae)
- Yeast mitochondrial ribosome - class c (Complex from Saccharomyces cerevisiae)
- 15s ribosomal rna (528 kDa, RNA from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Ms26 (26 kDa, Protein from Saccharomyces cerevisiae)
- Us12m (13 kDa, Protein from Saccharomyces cerevisiae)
- Ms35 (32 kDa, Protein from Saccharomyces cerevisiae)
- Us13m (13 kDa, Protein from Saccharomyces cerevisiae)
- Ml38 (40 kDa, Protein from Saccharomyces cerevisiae)
- Ul24m (33 kDa, Protein from Saccharomyces cerevisiae)
- Ml57 (23 kDa, Protein from Saccharomyces cerevisiae)
- Bl32m (13 kDa, Protein from Saccharomyces cerevisiae)
- Ml50 (30 kDa, Protein from Saccharomyces cerevisiae)
- Ms33 (11 kDa, Protein from Saccharomyces cerevisiae)
- Ul13m (18 kDa, Protein from Saccharomyces cerevisiae)
- Us8m (17 kDa, Protein from Saccharomyces cerevisiae)
- Ul5m (31 kDa, Protein from Saccharomyces cerevisiae)
- Bs21m (10 kDa, Protein from Saccharomyces cerevisiae)
- Ul15m (24 kDa, Protein from Saccharomyces cerevisiae)
- Us2m (29 kDa, Protein from Saccharomyces cerevisiae)
- Bs18m (11 kDa, Protein from Saccharomyces cerevisiae)
- Ml59 (18 kDa, Protein from Saccharomyces cerevisiae)
- Ms44 (39 kDa, Protein from Saccharomyces cerevisiae)
- Ms41 (11 kDa, Protein from Saccharomyces cerevisiae)
- Bl31m (20 kDa, Protein from Saccharomyces cerevisiae)
- Bl35m (7 kDa, Protein from Saccharomyces cerevisiae)
- Ul14m (14 kDa, Protein from Saccharomyces cerevisiae)
- Ms37 (10 kDa, Protein from Saccharomyces cerevisiae)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Ms23 (27 kDa, Protein from Saccharomyces cerevisiae)
- Ml58 (20 kDa, Protein from Saccharomyces cerevisiae)
- Ml49 (12 kDa, Protein from Saccharomyces cerevisiae)
- Us15m (29 kDa, Protein from Saccharomyces cerevisiae)
- Ms38 (4 kDa, Protein from Saccharomyces cerevisiae)
- Ml41 (14 kDa, Protein from Saccharomyces cerevisiae)
- Us9m (27 kDa, Protein from Saccharomyces cerevisiae)
- Us14m (13 kDa, Protein from Saccharomyces cerevisiae)
- Bl36m (4 kDa, Protein from Saccharomyces cerevisiae)
- Bl27m (39 kDa, Protein from Saccharomyces cerevisiae)
- Us7m (18 kDa, Protein from Saccharomyces cerevisiae)
- Ul30m (9 kDa, Protein from Saccharomyces cerevisiae)
- Trna (24 kDa, RNA from Saccharomyces cerevisiae)
- Us11m (16 kDa, Protein from Saccharomyces cerevisiae)
- Ul16m (22 kDa, Protein from Saccharomyces cerevisiae)
- Bl9m (8 kDa, Protein from Saccharomyces cerevisiae)
- Unknown protein sequence 1 (8 kDa, Protein from Saccharomyces cerevisiae)
- Ul6m (21 kDa, Protein from Saccharomyces cerevisiae)
- Us4m (56 kDa, Protein from Saccharomyces cerevisiae)
- Bs6m (14 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Ms43 (36 kDa, Protein from Saccharomyces cerevisiae)
- Ul3m (27 kDa, Protein from Saccharomyces cerevisiae)
- Bs16m (13 kDa, Protein from Saccharomyces cerevisiae)
- Sodium ion (22 Da, Ligand)
- Ml43 (15 kDa, Protein from Saccharomyces cerevisiae)
- Ms42 (29 kDa, Protein from Saccharomyces cerevisiae)
- Us10m (21 kDa, Protein from Saccharomyces cerevisiae)
- Bl34m (5 kDa, Protein from Saccharomyces cerevisiae)
- Us19m (9 kDa, Protein from Saccharomyces cerevisiae)
- Ms45 (36 kDa, Protein from Saccharomyces cerevisiae)
- Ml44 (36 kDa, Protein from Saccharomyces cerevisiae)
- Ml60 (14 kDa, Protein from Saccharomyces cerevisiae)
- Ms29 (45 kDa, Protein from Saccharomyces cerevisiae)
- Ml40 (13 kDa, Protein from Saccharomyces cerevisiae)
- Ul23m (24 kDa, Protein from Saccharomyces cerevisiae)
- Us17m (27 kDa, Protein from Saccharomyces cerevisiae)
- Bl21m (13 kDa, Protein from Saccharomyces cerevisiae)
- 21s ribosomal rna (1 MDa, RNA from Saccharomyces cerevisiae)
- Ml46 (32 kDa, Protein from Saccharomyces cerevisiae)
- Ul2m (43 kDa, Protein from Saccharomyces cerevisiae)
- Bl19m (17 kDa, Protein from Saccharomyces cerevisiae)
- Ms47 (51 kDa, Protein from Saccharomyces cerevisiae)
- Unknown protein sequence 2 (12 kDa, Protein from Saccharomyces cerevisiae)