Structure of a B-state intermediate committed to discard (Bd-I state)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9esh
Q-score: 0.324
Soni K, Horvath A, Dybkov O, Schwan M, Trakansuebkul S, Flemming D, Wild K, Urlaub H, Fischer T, Sinning I
Nat Struct Mol Biol (2025) [ DOI: doi:10.1038/s41594-024-01480-7 Pubmed: 39833470 ]
- Pre-mrna-processing factor 17 (63 kDa, Protein from Schizosaccharomyces pombe)
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Schizosaccharomyces pombe)
- U6snrna (31 kDa, RNA from Schizosaccharomyces pombe)
- G-patch domain-containing protein c1486.03 (91 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf2 (44 kDa, Protein from Schizosaccharomyces pombe)
- Unk2 (29 kDa, Protein from Schizosaccharomyces pombe)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Pre-mrna (9 kDa, RNA from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf15 (30 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf4 (80 kDa, Protein from Schizosaccharomyces pombe)
- Uncharacterized protein c20h4.06c (60 kDa, Protein from Schizosaccharomyces pombe)
- Bd-i complex (Complex from Schizosaccharomyces pombe)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-processing factor 19 (54 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-processing protein 45 (62 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf11 (148 kDa, Protein from Schizosaccharomyces pombe)
- Small nuclear ribonucleoprotein e (9 kDa, Protein from Schizosaccharomyces pombe)
- Zinc ion (65 Da, Ligand)
- Peptidyl-prolyl cis-trans isomerase ppi1 (16 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf21 (34 kDa, Protein from Schizosaccharomyces pombe)
- Inositol hexakisphosphate (660 Da, Ligand)
- Pre-mrna-splicing factor cdc5 (86 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf17 (37 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf5 (39 kDa, Protein from Schizosaccharomyces pombe)
- Small nuclear ribonucleoprotein f (8 kDa, Protein from Schizosaccharomyces pombe)
- Magnesium ion (24 Da, Ligand)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Schizosaccharomyces pombe)
- Small nuclear ribonucleoprotein-associated protein b (15 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor prp5 (52 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf22 (102 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf7 (21 kDa, Protein from Schizosaccharomyces pombe)
- Potassium ion (39 Da, Ligand)
- Pre-mrna-splicing factor cwf14 (17 kDa, Protein from Schizosaccharomyces pombe)
- Putative pre-mrna-splicing factor atp-dependent rna helicase c20h4.09 (73 kDa, Protein from Schizosaccharomyces pombe)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor syf2 (28 kDa, Protein from Schizosaccharomyces pombe)
- U2snrna (59 kDa, RNA from Schizosaccharomyces pombe)
- U5snrna (38 kDa, RNA from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor spp42 (274 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf3 (92 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf10 (111 kDa, Protein from Schizosaccharomyces pombe)
- Unk1 (1 kDa, Protein from Schizosaccharomyces pombe)
Structure of a B-state intermediate committed to discard (Bd-II state)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 9esi
Q-score: 0.364
Soni K, Horvath A, Dybkov O, Schwan M, Trakansuebkul S, Flemming D, Wild K, Urlaub H, Fischer T, Sinning I
Nat Struct Mol Biol (2025) [ DOI: doi:10.1038/s41594-024-01480-7 Pubmed: 39833470 ]
- Pre-mrna-processing factor 17 (63 kDa, Protein from Schizosaccharomyces pombe)
- Unk2 (4 kDa, Protein from Schizosaccharomyces pombe)
- Unk3 (1 kDa, Protein from Schizosaccharomyces pombe)
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Schizosaccharomyces pombe)
- U6snrna (31 kDa, RNA from Schizosaccharomyces pombe)
- G-patch domain-containing protein c1486.03 (91 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf2 (44 kDa, Protein from Schizosaccharomyces pombe)
- Protein saf4 (34 kDa, Protein from Schizosaccharomyces pombe)
- Stress response protein bis1 (43 kDa, Protein from Schizosaccharomyces pombe)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Pre-mrna (9 kDa, RNA from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf15 (30 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf4 (80 kDa, Protein from Schizosaccharomyces pombe)
- Uncharacterized protein c20h4.06c (60 kDa, Protein from Schizosaccharomyces pombe)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-processing factor 19 (54 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-processing protein 45 (62 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf11 (148 kDa, Protein from Schizosaccharomyces pombe)
- Small nuclear ribonucleoprotein e (9 kDa, Protein from Schizosaccharomyces pombe)
- Unk1 (29 kDa, Protein from Schizosaccharomyces pombe)
- Peptidyl-prolyl cis-trans isomerase ppi1 (16 kDa, Protein from Schizosaccharomyces pombe)
- Zinc ion (65 Da, Ligand)
- Pre-mrna-splicing factor cwf21 (34 kDa, Protein from Schizosaccharomyces pombe)
- Inositol hexakisphosphate (660 Da, Ligand)
- Pre-mrna-splicing factor cdc5 (86 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf17 (37 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf5 (39 kDa, Protein from Schizosaccharomyces pombe)
- Small nuclear ribonucleoprotein f (8 kDa, Protein from Schizosaccharomyces pombe)
- Magnesium ion (24 Da, Ligand)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Schizosaccharomyces pombe)
- Small nuclear ribonucleoprotein-associated protein b (15 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor prp5 (52 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf22 (102 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf7 (21 kDa, Protein from Schizosaccharomyces pombe)
- Potassium ion (39 Da, Ligand)
- Pre-mrna-splicing factor cwf14 (17 kDa, Protein from Schizosaccharomyces pombe)
- Putative pre-mrna-splicing factor atp-dependent rna helicase c20h4.09 (73 kDa, Protein from Schizosaccharomyces pombe)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor syf2 (28 kDa, Protein from Schizosaccharomyces pombe)
- U2snrna (59 kDa, RNA from Schizosaccharomyces pombe)
- Bd-ii complex (Complex from Schizosaccharomyces pombe)
- U5snrna (38 kDa, RNA from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor spp42 (274 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf3 (92 kDa, Protein from Schizosaccharomyces pombe)
- Pre-mrna-splicing factor cwf10 (111 kDa, Protein from Schizosaccharomyces pombe)
- Uncharacterized protein c17a2.08c (41 kDa, Protein from Schizosaccharomyces pombe)
Small subunit of the Chlamydomonas reinhardtii mitoribosome
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 7pkq
Q-score: 0.231
Waltz F, Salinas-Giege T, Englmeier R, Meichel H, Soufari H, Kuhn L, Pfeffer S, Foerster F, Engel BD, Giege P, Drouard L, Hashem Y
To Be Published
- Unk4 (6 kDa, Protein from Chlamydomonas reinhardtii)
- Mitochondrial ribosomal protein s6 (13 kDa, Protein from Chlamydomonas reinhardtii)
- Unk3 (4 kDa, Protein from Chlamydomonas reinhardtii)
- Us15m (34 kDa, Protein from Chlamydomonas reinhardtii)
- S3 rrna (126 kDa, RNA from Chlamydomonas reinhardtii)
- Bs18m (36 kDa, Protein from Chlamydomonas reinhardtii)
- Ms23 (20 kDa, Protein from Chlamydomonas reinhardtii)
- Ms33 (22 kDa, Protein from Chlamydomonas reinhardtii)
- Ms45 (102 kDa, Protein from Chlamydomonas reinhardtii)
- S1 rrna (32 kDa, RNA from Chlamydomonas reinhardtii)
- Ms31/46 (15 kDa, Protein from Chlamydomonas reinhardtii)
- Unk1 (2 kDa, Protein from Chlamydomonas reinhardtii)
- Us2m (53 kDa, Protein from Chlamydomonas reinhardtii)
- Ms35 (88 kDa, Protein from Chlamydomonas reinhardtii)
- Unk6 (48 kDa, Protein from Chlamydomonas reinhardtii)
- S2 rrna (68 kDa, RNA from Chlamydomonas reinhardtii)
- Unk5 (9 kDa, Protein from Chlamydomonas reinhardtii)
- Ms105 (28 kDa, Protein from Chlamydomonas reinhardtii)
- Us4m (43 kDa, Protein from Chlamydomonas reinhardtii)
- Small subunit of the chlamydomonas reinhardtii mitochondrial ribosome (Complex from Chlamydomonas reinhardtii)
- Ms107 (43 kDa, Protein from Chlamydomonas reinhardtii)
- S5 drbm domain-containing protein (38 kDa, Protein from Chlamydomonas reinhardtii)
- Us19m (12 kDa, Protein from Chlamydomonas reinhardtii)
- Mitochondrial ribosomal protein s13 (13 kDa, Protein from Chlamydomonas reinhardtii)
- Us17m (22 kDa, Protein from Chlamydomonas reinhardtii)
- Us12m (14 kDa, Protein from Chlamydomonas reinhardtii)
- Ms106 (51 kDa, Protein from Chlamydomonas reinhardtii)
- Ms29 (49 kDa, Protein from Chlamydomonas reinhardtii)
- Plastid-specific ribosomal protein 4 (14 kDa, Protein from Chlamydomonas reinhardtii)
- Unk2 (12 kDa, Protein from Chlamydomonas reinhardtii)
- S4 rrna (133 kDa, RNA from Chlamydomonas reinhardtii)
- Ribosomal_s3_c domain-containing protein (50 kDa, Protein from Chlamydomonas reinhardtii)
- Us8m (44 kDa, Protein from Chlamydomonas reinhardtii)
- Us11m (23 kDa, Protein from Chlamydomonas reinhardtii)
- Ribosomal_s10 domain-containing protein (61 kDa, Protein from Chlamydomonas reinhardtii)
- Ms26 (22 kDa, Protein from Chlamydomonas reinhardtii)
- Bs1m (26 kDa, Protein from Chlamydomonas reinhardtii)
- 30s ribosomal protein s9, chloroplastic (45 kDa, Protein from Chlamydomonas reinhardtii)
- Mitochondrial ribosomal protein s14 (13 kDa, Protein from Chlamydomonas reinhardtii)
- Us7m,ribosomal_s7 domain-containing protein,ribosomal_s7 domain-containing protein,ribosomal_s7 domain-containing protein (32 kDa, Protein from Chlamydomonas reinhardtii)
- Bs16m (10 kDa, Protein from Chlamydomonas reinhardtii)
- Ms45-insert (36 kDa, Protein from Chlamydomonas reinhardtii)
- Ms34 (14 kDa, Protein from Chlamydomonas reinhardtii)
Large subunit of the Chlamydomonas reinhardtii mitoribosome
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7pkt
Q-score: 0.486
Waltz F, Salinas-Giege T, Englmeier R, Meichel H, Soufari H, Kuhn L, Pfeffer S, Forster F, Engel BD, Giege P, Drouard L, Hashem Y
Nat Commun (2021) 12 pp. 7176-7176 [ Pubmed: 34887394 DOI: doi:10.1038/s41467-021-27200-z ]
- L4 rrna (38 kDa, RNA from Chlamydomonas reinhardtii)
- Ml41 (12 kDa, Protein from Chlamydomonas reinhardtii)
- Ml59/64 (14 kDa, Protein from Chlamydomonas reinhardtii)
- Ribosomal_l30 domain-containing protein (24 kDa, Protein from Chlamydomonas reinhardtii)
- Ml63/57/60 (14 kDa, Protein from Chlamydomonas reinhardtii)
- L1 rrna (51 kDa, RNA from Chlamydomonas reinhardtii)
- 50s ribosomal protein l9, chloroplastic (30 kDa, Protein from Chlamydomonas reinhardtii)
- Ribosomal_l2_c domain-containing protein (41 kDa, Protein from Chlamydomonas reinhardtii)
- Large subunit of the mitochondrial ribosome of chlamydomonas reinhardtii (Complex from Chlamydomonas reinhardtii)
- Ml114 (48 kDa, Protein from Chlamydomonas reinhardtii)
- Ml119 (36 kDa, Protein from Chlamydomonas reinhardtii)
- Unk2 (4 kDa, Protein from Chlamydomonas reinhardtii)
- Bl35m (17 kDa, Protein from Chlamydomonas reinhardtii)
- Plastid ribosomal protein l6 (22 kDa, Protein from Chlamydomonas reinhardtii)
- Ul14m (13 kDa, Protein from Chlamydomonas reinhardtii)
- Ml118 (64 kDa, Protein from Chlamydomonas reinhardtii)
- Bl21m (40 kDa, Protein from Chlamydomonas reinhardtii)
- Ml80 (27 kDa, Protein from Chlamydomonas reinhardtii)
- Ml115 (72 kDa, Protein from Chlamydomonas reinhardtii)
- Ml116 (53 kDa, Protein from Chlamydomonas reinhardtii)
- Zinc ion (65 Da, Ligand)
- Ul29m (14 kDa, Protein from Chlamydomonas reinhardtii)
- Ml43 (16 kDa, Protein from Chlamydomonas reinhardtii)
- L3b rrna (59 kDa, RNA from Chlamydomonas reinhardtii)
- Ul22m (39 kDa, Protein from Chlamydomonas reinhardtii)
- 50s ribosomal protein l20 (13 kDa, Protein from Chlamydomonas reinhardtii)
- L2a rrna (27 kDa, RNA from Chlamydomonas reinhardtii)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Ul3m (44 kDa, Protein from Chlamydomonas reinhardtii)
- Bl28m (17 kDa, Protein from Chlamydomonas reinhardtii)
- L5 rrna (47 kDa, RNA from Chlamydomonas reinhardtii)
- Mitochondrial ribosomal protein l33 (6 kDa, Protein from Chlamydomonas reinhardtii)
- L8 rrna (132 kDa, RNA from Chlamydomonas reinhardtii)
- Bl34m (29 kDa, Protein from Chlamydomonas reinhardtii)
- Mitochondrial ribosomal protein l23 (25 kDa, Protein from Chlamydomonas reinhardtii)
- Ml117 (75 kDa, Protein from Chlamydomonas reinhardtii)
- Bl36m (3 kDa, Protein from Chlamydomonas reinhardtii)
- L3a rrna (5s) (24 kDa, RNA from Chlamydomonas reinhardtii)
- Mitochondrial ribosomal protein l17,bl17m (21 kDa, Protein from Chlamydomonas reinhardtii)
- L6 rrna (43 kDa, RNA from Chlamydomonas reinhardtii)
- Mitochondrial ribosomal protein l13 (29 kDa, Protein from Chlamydomonas reinhardtii)
- Ul4m (45 kDa, Protein from Chlamydomonas reinhardtii)
- Ml113 (84 kDa, Protein from Chlamydomonas reinhardtii)
- Bl32m (13 kDa, Protein from Chlamydomonas reinhardtii)
- L7 rrna (186 kDa, RNA from Chlamydomonas reinhardtii)
- Unk1 (2 kDa, Protein from Chlamydomonas reinhardtii)
- Ribosomal_l18e/l15p domain-containing protein (35 kDa, Protein from Chlamydomonas reinhardtii)
- Ul5m (23 kDa, Protein from Chlamydomonas reinhardtii)
- Mitochondrial ribosomal protein l17 (27 kDa, Protein from Chlamydomonas reinhardtii)
- Ribosomal_l16 domain-containing protein (27 kDa, Protein from Chlamydomonas reinhardtii)
- Bl27m (18 kDa, Protein from Chlamydomonas reinhardtii)
- Mitochondrial ribosomal protein l19 (33 kDa, Protein from Chlamydomonas reinhardtii)
- Ribosomal_tl5_c domain-containing protein (38 kDa, Protein from Chlamydomonas reinhardtii)
- Ppr* (14 kDa, Protein from Chlamydomonas reinhardtii)
- Kow domain-containing protein,ul24m (31 kDa, Protein from Chlamydomonas reinhardtii)
- Ml40 (17 kDa, Protein from Chlamydomonas reinhardtii)
- Ml87 (23 kDa, Protein from Chlamydomonas reinhardtii)
Cryo-EM structure of respiratory super-complex CI+III2 from Tetrahymena thermophila
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 7tgh
Q-score: 0.605
Zhou L, Maldonado M, Padavannil A, Guo F, Letts JA
Science (2022) 376 pp. 831-839 [ DOI: doi:10.1126/science.abn7747 Pubmed: 35357889 ]
- Uqcrb (39 kDa, Protein from Tetrahymena thermophila)
- Nadh-ubiquinone oxidoreductase 75 kda subunit (80 kDa, Protein from Tetrahymena thermophila)
- Ubiquinone-10 (863 Da, Ligand)
- Ndub7 (13 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (7 kDa, Protein from Tetrahymena thermophila)
- M16 family peptidase, putative (53 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (15 kDa, Protein from Tetrahymena thermophila)
- Zinc-finger protein (15 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase subunit 2 (20 kDa, Protein from Tetrahymena thermophila)
- Mitochondrial super-complex i+iii2 of tetrahymena thermophila (2 MDa, Complex from Tetrahymena thermophila)
- Heme c (618 Da, Ligand)
- Ndua8 (28 kDa, Protein from Tetrahymena thermophila)
- Ndub2 (14 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (9 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase subunit 1 (7 kDa, Protein from Tetrahymena thermophila)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Gamma-carbonic anhydrase (25 kDa, Protein from Tetrahymena thermophila)
- Ndutt6 (17 kDa, Protein from Tetrahymena thermophila)
- Nadh-ubiquinone oxidoreductase 24 kda subunit (31 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (14 kDa, Protein from Tetrahymena thermophila)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Ndutt4 (24 kDa, Protein from Tetrahymena thermophila)
- Ndutt10 (12 kDa, Protein from Tetrahymena thermophila)
- Unk4 (17 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (13 kDa, Protein from Tetrahymena thermophila)
- Nadh-ubiquinone oxidoreductase chain 4 (58 kDa, Protein from Tetrahymena thermophila)
- Ndub10 (22 kDa, Protein from Tetrahymena thermophila)
- Thioredoxin (19 kDa, Protein from Tetrahymena thermophila)
- Gamma-carbonic anhydrase (28 kDa, Protein from Tetrahymena thermophila)
- Acyl carrier protein (15 kDa, Protein from Tetrahymena thermophila)
- Nadh-ubiquinone oxidoreductase chain 1 (32 kDa, Protein from Tetrahymena thermophila)
- Flavin mononucleotide (456 Da, Ligand)
- Ndua13 (21 kDa, Protein from Tetrahymena thermophila)
- Transcription factor apfi protein, putative (39 kDa, Protein from Tetrahymena thermophila)
- Acyl-coa synthetase (amp-forming)/amp-acid ligase ii (36 kDa, Protein from Tetrahymena thermophila)
- Apocytochrome b (50 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (8 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase subunit 10 (18 kDa, Protein from Tetrahymena thermophila)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Transmembrane protein, putative (8 kDa, Protein from Tetrahymena thermophila)
- Nadh-ubiquinone oxidoreductase complex i, 21 kda subunit (17 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase subunit 7 (51 kDa, Protein from Tetrahymena thermophila)
- Unk5 (13 kDa, Protein from Tetrahymena thermophila)
- Ndutt3 (35 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (52 kDa, Protein from Tetrahymena thermophila)
- Ubiquinol-cytochrome c reductase hinge protein (10 kDa, Protein from Tetrahymena thermophila)
- Ndutt8 (15 kDa, Protein from Tetrahymena thermophila)
- Dnaj domain protein (36 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (29 kDa, Protein from Tetrahymena thermophila)
- Unk3 (1 kDa, Protein from Tetrahymena thermophila)
- Ymf65 (43 kDa, Protein from Tetrahymena thermophila)
- Ndutt12 (11 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (24 kDa, Protein from Tetrahymena thermophila)
- Ndutt9 (15 kDa, Protein from Tetrahymena thermophila)
- Iron/sulfur cluster (351 Da, Ligand)
- Unk2 (1 kDa, Protein from Tetrahymena thermophila)
- Nduph2 (22 kDa, Protein from Tetrahymena thermophila)
- Nadh-ubiquinone oxidoreductase chain 3 (14 kDa, Protein from Tetrahymena thermophila)
- Acyl carrier protein (16 kDa, Protein from Tetrahymena thermophila)
- Ribosomal protein l51/s25/ci-b8 domain protein (12 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase subunit 5 (88 kDa, Protein from Tetrahymena thermophila)
- Unk1 (2 kDa, Protein from Tetrahymena thermophila)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial (21 kDa, Protein from Tetrahymena thermophila)
- Ymf62 (30 kDa, Protein from Tetrahymena thermophila)
- 2 iron, 2 sulfur cluster-binding protein (19 kDa, Protein from Tetrahymena thermophila)
- S-[2-({n-[(2s)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] tetradecanethioate (568 Da, Ligand)
- Ymf57 (12 kDa, Protein from Tetrahymena thermophila)
- Lipid-a-disaccharide synthase (59 kDa, Protein from Tetrahymena thermophila)
- Ndua7 (33 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 (22 kDa, Protein from Tetrahymena thermophila)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Gram domain protein (10 kDa, Protein from Tetrahymena thermophila)
- Peptidase m16 inactive domain protein (58 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (15 kDa, Protein from Tetrahymena thermophila)
- Ndub6 (15 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (26 kDa, Protein from Tetrahymena thermophila)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Etc complex i subunit motif protein (24 kDa, Protein from Tetrahymena thermophila)
- Ndub9 (22 kDa, Protein from Tetrahymena thermophila)
- Zinc ion (65 Da, Ligand)
- Ndub8 (24 kDa, Protein from Tetrahymena thermophila)
- Nadh-ubiquinone oxidoreductase 1, chain, putative (28 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (16 kDa, Protein from Tetrahymena thermophila)
- Ymf58 (13 kDa, Protein from Tetrahymena thermophila)
- Nad-dependent epimerase/dehydratase family protein (41 kDa, Protein from Tetrahymena thermophila)
- Cardiolipin (1 kDa, Ligand)
- Nadh dehydrogenase subunit 9 (23 kDa, Protein from Tetrahymena thermophila)
- Ndub4 (12 kDa, Protein from Tetrahymena thermophila)
- Cytochrome protein c1 (37 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (23 kDa, Protein from Tetrahymena thermophila)
- Nduc2 (12 kDa, Protein from Tetrahymena thermophila)
- Rieske iron-sulfur protein, ubiquinol-cytochrome c reductase iron-sulfur subunit (30 kDa, Protein from Tetrahymena thermophila)
- Ndua1 (11 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase, putative (20 kDa, Protein from Tetrahymena thermophila)
Trypanosoma brucei mitochondrial ribosome large subunit assembly intermediate
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7aoi
Q-score: 0.486
Tobiasson V, Gahura O, Aibara S, Baradaran R, Zikova A, Amunts A
EMBO J (2021) 40 pp. e106292-e106292 [ DOI: doi:10.15252/embj.2020106292 Pubmed: 33576519 ]
- Lim domain containing protein,ml90 (13 kDa, Protein from Trypanosoma brucei)
- Ml86 (19 kDa, Protein from Trypanosoma brucei)
- Dead-box helicase, putative,mt-laf2 (76 kDa, Protein from Trypanosoma brucei)
- Tetratricopeptide repeat (48 kDa, Protein from Trypanosoma brucei)
- Ml89 (22 kDa, Protein from Trypanosoma brucei)
- Unk11 (3 kDa, Protein from Trypanosoma brucei)
- Unk4 (586 Da, Protein from Trypanosoma brucei)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Spou rrna methylase family (48 kDa, Protein from Trypanosoma brucei)
- Ml98 (10 kDa, Protein from Trypanosoma brucei)
- Ml99 (9 kDa, Protein from Trypanosoma brucei)
- 50s ribosomal protein l13 (20 kDa, Protein from Trypanosoma brucei)
- Ml70 (47 kDa, Protein from Trypanosoma brucei)
- Ml53 (33 kDa, Protein from Trypanosoma brucei)
- Ml81 (25 kDa, Protein from Trypanosoma brucei)
- Ml95 (16 kDa, Protein from Trypanosoma brucei)
- Mt-laf15_1 (21 kDa, Protein from Trypanosoma brucei)
- Rna uridylyltransferase (17 kDa, Protein from Trypanosoma brucei)
- Ml71 (49 kDa, Protein from Trypanosoma brucei)
- Ml84 (23 kDa, Protein from Trypanosoma brucei)
- Mitochondrial ribosomal protein l51 / s25 / ci-b8 domain containing protein (22 kDa, Protein from Trypanosoma brucei)
- Ml78 (31 kDa, Protein from Trypanosoma brucei)
- Mitochondrial rna binding complex 1 subunit (37 kDa, Protein from Trypanosoma brucei)
- Complex1-lyr-like (10 kDa, Protein from Trypanosoma brucei)
- 50s ribosomal protein l17 (30 kDa, Protein from Trypanosoma brucei)
- Mt-laf8 (58 kDa, Protein from Trypanosoma brucei)
- Ml94 (11 kDa, Protein from Trypanosoma brucei)
- Unk8 (1 kDa, Protein from Trypanosoma brucei)
- Peptidyl-prolyl cis-trans isomerase (20 kDa, Protein from Trypanosoma brucei)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- Ml100,ml100 (10 kDa, Protein from Trypanosoma brucei)
- Mt-laf12 (70 kDa, Protein from Trypanosoma brucei)
- Ml101 (21 kDa, Protein from Trypanosoma brucei)
- Mt-laf19 (11 kDa, Protein from Trypanosoma brucei)
- Mt-laf14 (78 kDa, Protein from Trypanosoma brucei)
- Acyl carrier protein (9 kDa, Protein from Trypanosoma brucei)
- Gtp-binding protein, putative,mt-enga (60 kDa, Protein from Trypanosoma brucei)
- Ml42 (15 kDa, Protein from Trypanosoma brucei)
- Unk6/mt-laf15_2 (9 kDa, Protein from Trypanosoma brucei)
- Bl20m (22 kDa, Protein from Trypanosoma brucei)
- Ml93 (16 kDa, Protein from Trypanosoma brucei)
- Pseudouridylate synthase, putative (42 kDa, Protein from Trypanosoma brucei)
- Ml52 (14 kDa, Protein from Trypanosoma brucei)
- Trypanosoma brucei mitochondrial ribosome large subunit assembly intermediate (2 MDa, Complex from Trypanosoma brucei)
- Ul29m (53 kDa, Protein from Trypanosoma brucei)
- Ribosomal_l9 domain-containing protein (25 kDa, Protein from Trypanosoma brucei)
- Ribosomal protein l23 (19 kDa, Protein from Trypanosoma brucei)
- Bl32m (6 kDa, Protein from Trypanosoma brucei)
- Ml76 (18 kDa, Protein from Trypanosoma brucei)
- Ml74 (25 kDa, Protein from Trypanosoma brucei)
- Ml64,ml64 (23 kDa, Protein from Trypanosoma brucei)
- Ml41 (13 kDa, Protein from Trypanosoma brucei)
- Magnesium ion (24 Da, Ligand)
- Mt-laf7,mt-laf7 (18 kDa, Protein from Trypanosoma brucei)
- Ml68,ml68,ml68 (40 kDa, Protein from Trypanosoma brucei)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Ul24m (39 kDa, Protein from Trypanosoma brucei)
- Unk2 (657 Da, Protein from Trypanosoma brucei)
- Ribosomal protein l21 (20 kDa, Protein from Trypanosoma brucei)
- Unk5 (870 Da, Protein from Trypanosoma brucei)
- Gtp-binding protein (33 kDa, Protein from Trypanosoma brucei)
- Ml67 (89 kDa, Protein from Trypanosoma brucei)
- Ribosomal protein l3 mitochondrial, putative (42 kDa, Protein from Trypanosoma brucei)
- Unk7 (1 kDa, Protein from Trypanosoma brucei)
- 50s ribosomal protein l14 (19 kDa, Protein from Trypanosoma brucei)
- Unk10 (1 kDa, Protein from Trypanosoma brucei)
- Chaperone protein dnaj, putative,ml77,chaperone protein dnaj, putative (30 kDa, Protein from Trypanosoma brucei)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Ml63 (17 kDa, Protein from Trypanosoma brucei)
- Bl19m (16 kDa, Protein from Trypanosoma brucei)
- Unk3 (1 kDa, Protein from Trypanosoma brucei)
- Unk1 (3 kDa, Protein from Trypanosoma brucei)
- Ribosomal protein l22p/l17e (31 kDa, Protein from Trypanosoma brucei)
- Ml49 (20 kDa, Protein from Trypanosoma brucei)
- Ml85 (16 kDa, Protein from Trypanosoma brucei)
- Zinc ion (65 Da, Ligand)
- Ribosomal_l18e/l15p domain-containing protein (41 kDa, Protein from Trypanosoma brucei)
- Ribosomal protein l11,ul11m (29 kDa, Protein from Trypanosoma brucei)
- Ul30m (17 kDa, Protein from Trypanosoma brucei)
- Bl33m (17 kDa, Protein from Trypanosoma brucei)
- Mt-lsu rrna (242 kDa, RNA from Trypanosoma brucei)
- Ml87 (9 kDa, Protein from Trypanosoma brucei)
- Bl28m (25 kDa, Protein from Trypanosoma brucei)
- Mt-laf4 (69 kDa, Protein from Trypanosoma brucei)
- Lipase (class 3) (18 kDa, Protein from Trypanosoma brucei)
- Unk9 (2 kDa, Protein from Trypanosoma brucei)
- Ribosomal protein l4/l1 family (51 kDa, Protein from Trypanosoma brucei)
- Peptidyl-prolyl cis-trans isomerase (20 kDa, Protein from Trypanosoma brucei)
- Ml80 (25 kDa, Protein from Trypanosoma brucei)
Plant mitochondrial respiratory complex I
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7a23
Q-score: 0.338
Soufari H, Parrot C, Kuhn L, Waltz F, Hashem Y
Nat Commun (2020) 11 pp. 5195-5195 [ DOI: doi:10.1038/s41467-020-18814-w Pubmed: 33060577 ]
- Pgiv (11 kDa, Protein from Brassica oleracea)
- 24kda (28 kDa, Protein from Brassica oleracea)
- B8 (10 kDa, Protein from Brassica oleracea)
- 15kda (9 kDa, Protein from Brassica oleracea)
- 75kda (81 kDa, Protein from Brassica oleracea)
- Nad4lm (11 kDa, Protein from Brassica oleracea)
- B13 (19 kDa, Protein from Brassica oleracea)
- Esss (12 kDa, Protein from Brassica oleracea)
- Ubiquinone-10 (863 Da, Ligand)
- Nad9m (22 kDa, Protein from Brassica oleracea)
- Nad1m (36 kDa, Protein from Brassica oleracea)
- Flavin mononucleotide (456 Da, Ligand)
- 13kda (12 kDa, Protein from Brassica oleracea)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- B15 (8 kDa, Protein from Brassica oleracea)
- B12-1 (8 kDa, Protein from Brassica oleracea)
- B17.2 (18 kDa, Protein from Brassica oleracea)
- B14.5a (15 kDa, Protein from Brassica oleracea)
- 51kda (53 kDa, Protein from Brassica oleracea)
- Unk1 (1 kDa, Protein from Brassica oleracea)
- Psst (24 kDa, Protein from Brassica oleracea)
- Iron/sulfur cluster (351 Da, Ligand)
- Mwfe (7 kDa, Protein from Brassica oleracea)
- Zinc ion (65 Da, Ligand)
- Tyky (25 kDa, Protein from Brassica oleracea)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- P2 (11 kDa, Protein from Brassica oleracea)
- Nad4m (55 kDa, Protein from Brassica oleracea)
- Pdsw (12 kDa, Protein from Brassica oleracea)
- B22 (13 kDa, Protein from Brassica oleracea)
- Bicarbonate ion (61 Da, Ligand)
- Mitochondrial respiratory complex i (Complex from Brassica oleracea)
- Acpm2 (14 kDa, Protein from Brassica oleracea)
- P1 (11 kDa, Protein from Brassica oleracea)
- Phosphatidylinositol (887 Da, Ligand)
- B14.5b (9 kDa, Protein from Brassica oleracea)
- Nad7m (45 kDa, Protein from Brassica oleracea)
- Nad5m (74 kDa, Protein from Brassica oleracea)
- Aggg (7 kDa, Protein from Brassica oleracea)
- Cal1 (27 kDa, Protein from Brassica oleracea)
- 39kda (43 kDa, Protein from Brassica oleracea)
- Nad3m (13 kDa, Protein from Brassica oleracea)
- 18kda (17 kDa, Protein from Brassica oleracea)
- Cardiolipin (1 kDa, Ligand)
- 20.9kda (11 kDa, Protein from Brassica oleracea)
- B14 (15 kDa, Protein from Brassica oleracea)
- Ca1 (30 kDa, Protein from Brassica oleracea)
- Nad6m (23 kDa, Protein from Brassica oleracea)
- B9 (6 kDa, Protein from Brassica oleracea)
- B16.6 (16 kDa, Protein from Brassica oleracea)
- B18 (11 kDa, Protein from Brassica oleracea)
- Unk2 (1 kDa, Protein from Brassica oleracea)
- Acpm1 (13 kDa, Protein from Brassica oleracea)
- Nad2m (55 kDa, Protein from Brassica oleracea)
- (1s)-2-{[(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (720 Da, Ligand)
Structure of the plant mitochondrial ribosome
Resolution: 3.86 Å
EM Method: Single-particle
Fitted PDBs: 6xyw
Q-score: 0.359
Waltz F, Soufari H, Bochler A, Giege P, Hashem Y
Nat Plants (2020) 6 pp. 377-383 [ DOI: doi:10.1038/s41477-020-0631-5 Pubmed: 32251374 ]
- Unk-1 (4 kDa, Protein from Arabidopsis thaliana)
- At1g26740/t24p13_11 (14 kDa, Protein from Arabidopsis thaliana)
- Mitochondrial 28s ribosomal protein s29-like protein (53 kDa, Protein from Arabidopsis thaliana)
- At4g39880 (19 kDa, Protein from Arabidopsis thaliana)
- At3g51010 (21 kDa, Protein from Arabidopsis thaliana)
- Translation elongation factor ef1b/ribosomal protein s6 family protein (15 kDa, Protein from Arabidopsis thaliana)
- Unk-2 (5 kDa, Protein from Arabidopsis thaliana)
- 40s ribosomal protein s19, mitochondrial (23 kDa, Protein from Arabidopsis thaliana)
- Pentatricopeptide repeat-containing protein pnm1, mitochondrial (59 kDa, Protein from Arabidopsis thaliana)
- 28s ribosomal s34 protein (15 kDa, Protein from Arabidopsis thaliana)
- 39s ribosomal protein (14 kDa, Protein from Arabidopsis thaliana)
- Small ribosomal subunit protein s13, mitochondrial (17 kDa, Protein from Arabidopsis thaliana)
- Ribosomal protein l25/gln-trna synthetase, anti-codon-binding domain-containing protein (27 kDa, Protein from Arabidopsis thaliana)
- At3g06320 (6 kDa, Protein from Arabidopsis thaliana)
- 40s ribosomal protein s10, mitochondrial (27 kDa, Protein from Arabidopsis thaliana)
- At5g09770 (18 kDa, Protein from Arabidopsis thaliana)
- At5g49210/k21p3_8 (23 kDa, Protein from Arabidopsis thaliana)
- Pentatricopeptide repeat-containing protein at1g60770 (55 kDa, Protein from Arabidopsis thaliana)
- At1g01640 (23 kDa, Protein from Arabidopsis thaliana)
- 50s ribosomal protein l4 (33 kDa, Protein from Arabidopsis thaliana)
- At5g27820 (12 kDa, Protein from Arabidopsis thaliana)
- Uncharacterized protein (22 kDa, Protein from Arabidopsis thaliana)
- 3-hydroxyisobutyryl-coa hydrolase-like protein 2, mitochondrial (45 kDa, Protein from Arabidopsis thaliana)
- 50s ribosomal protein l3-2, mitochondrial (35 kDa, Protein from Arabidopsis thaliana)
- 60s ribosomal protein l16, mitochondrial (20 kDa, Protein from Arabidopsis thaliana)
- Unk-6 (2 kDa, Protein from Arabidopsis thaliana)
- 50s ribosomal protein l21, mitochondrial (30 kDa, Protein from Arabidopsis thaliana)
- At5g26800 (12 kDa, Protein from Arabidopsis thaliana)
- Unk-5 (6 kDa, Protein from Arabidopsis thaliana)
- At2g34520 (18 kDa, Protein from Arabidopsis thaliana)
- At4g31460/f3l17_30 (24 kDa, Protein from Arabidopsis thaliana)
- Ms31/ms46 (8 kDa, Protein from Arabidopsis thaliana)
- Ribosomal protein l9/rnase h1 (25 kDa, Protein from Arabidopsis thaliana)
- 50s ribosomal protein l24 (17 kDa, Protein from Arabidopsis thaliana)
- 50s ribosomal protein l27 (16 kDa, Protein from Arabidopsis thaliana)
- 30s ribosomal protein s9, mitochondrial (48 kDa, Protein from Arabidopsis thaliana)
- At1g07830/f24b9_7 (16 kDa, Protein from Arabidopsis thaliana)
- Probable ribosomal protein s11, mitochondrial (33 kDa, Protein from Arabidopsis thaliana)
- Rna (2842-mer) (918 kDa, RNA from Arabidopsis thaliana)
- Pentatricopeptide repeat-containing protein at3g02650, mitochondrial (63 kDa, Protein from Arabidopsis thaliana)
- Ribosomal protein l31 (8 kDa, Protein from Arabidopsis thaliana)
- At4g05400 (27 kDa, Protein from Arabidopsis thaliana)
- Mitochondrial ribosomal protein l51/s25/ci-b8 family protein (16 kDa, Protein from Arabidopsis thaliana)
- At1g15810/f7h2_23 (47 kDa, Protein from Arabidopsis thaliana)
- At1g52370 protein (30 kDa, Protein from Arabidopsis thaliana)
- Rppr* (18 kDa, Protein from Arabidopsis thaliana)
- 30s ribosomal protein s31, mitochondrial (10 kDa, Protein from Arabidopsis thaliana)
- 50s ribosomal protein hlp, mitochondrial (18 kDa, Protein from Arabidopsis thaliana)
- Cx9c domain-containing protein (10 kDa, Protein from Arabidopsis thaliana)
- The large mitoribosomal subunit of the plant mitoribosome (Complex from Arabidopsis thaliana)
- Ribosomal protein s2, mitochondrial (24 kDa, Protein from Arabidopsis thaliana)
- At4g22000 (15 kDa, Protein from Arabidopsis thaliana)
- Rna (118-mer) (37 kDa, RNA from Arabidopsis thaliana)
- 60s ribosomal protein l2, mitochondrial (37 kDa, Protein from Arabidopsis thaliana)
- Rppr* (24 kDa, Protein from Arabidopsis thaliana)
- Ribosomal protein s3, mitochondrial (64 kDa, Protein from Arabidopsis thaliana)
- Uncharacterized protein at1g27435/f17l21.30 (8 kDa, Protein from Arabidopsis thaliana)
- Rppr* (47 kDa, Protein from Arabidopsis thaliana)
- Ribosomal protein (11 kDa, Protein from Arabidopsis thaliana)
- 30s ribosomal protein s16-2, chloroplastic/mitochondrial (15 kDa, Protein from Arabidopsis thaliana)
- At5g55140 (12 kDa, Protein from Arabidopsis thaliana)
- F10k1.8 protein (29 kDa, Protein from Arabidopsis thaliana)
- At1g24240/f3i6_17 (25 kDa, Protein from Arabidopsis thaliana)
- 37s ribosomal protein s27 (11 kDa, Protein from Arabidopsis thaliana)
- At1g14620/t5e21_15 (27 kDa, Protein from Arabidopsis thaliana)
- Rppr* (22 kDa, Protein from Arabidopsis thaliana)
- Rna (1743-mer) (564 kDa, RNA from Arabidopsis thaliana)
- Ribosomal protein s4, mitochondrial (43 kDa, Protein from Arabidopsis thaliana)
- Nucleic acid-binding, ob-fold-like protein (12 kDa, Protein from Arabidopsis thaliana)
- 50s ribosomal protein l10 (19 kDa, Protein from Arabidopsis thaliana)
- At5g40080 (10 kDa, Protein from Arabidopsis thaliana)
- At1g64880 (60 kDa, Protein from Arabidopsis thaliana)
- 40s ribosomal protein s15a-5 (14 kDa, Protein from Arabidopsis thaliana)
- Ms38 (15 kDa, Protein from Arabidopsis thaliana)
- 60s ribosomal protein l5, mitochondrial (21 kDa, Protein from Arabidopsis thaliana)
- Ribosomal protein s12, mitochondrial (14 kDa, Protein from Arabidopsis thaliana)
- Ribosomal protein s7, mitochondrial (17 kDa, Protein from Arabidopsis thaliana)
- Ribosomal protein l35 (20 kDa, Protein from Arabidopsis thaliana)
- Unk-3 (4 kDa, Protein from Arabidopsis thaliana)
- Gb|aac32909.1 (48 kDa, Protein from Arabidopsis thaliana)
- 50s ribosomal protein l20 (14 kDa, Protein from Arabidopsis thaliana)
- Ribosomal protein l18e/l15 superfamily protein (31 kDa, Protein from Arabidopsis thaliana)
- Unk-4 (2 kDa, Protein from Arabidopsis thaliana)
- At1g73940/f2p9_19 (17 kDa, Protein from Arabidopsis thaliana)
- At4g35490 (16 kDa, Protein from Arabidopsis thaliana)
- Expressed protein (22 kDa, Protein from Arabidopsis thaliana)
- Putative ribosomal protein l6 (11 kDa, Protein from Arabidopsis thaliana)
- Ribosomal protein s21 family protein (11 kDa, Protein from Arabidopsis thaliana)
- Adenylyl cyclase (43 kDa, Protein from Arabidopsis thaliana)
- At3g18240 protein (48 kDa, Protein from Arabidopsis thaliana)