Tetrahymena ribozyme with water and magnesium ions
Resolution: 2.31 Å
EM Method: Single-particle
Fitted PDBs: 9cbw, 9cby
Q-score: 0.5455
Kretsch RC, Li S, Pintilie G, Palo MZ, Case DA, Das R, Chiu W
To Be Published
- Apo l-21 scai tetrahymena ribozyme with water and metal ions. (125 kDa, Complex from Tetrahymena thermophila)
- Rna (387-mer) (125 kDa, RNA from Tetrahymena thermophila)
- Water (18 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
Tetrahymena ribozyme with water and magnesium ions
Resolution: 2.2 Å
EM Method: Single-particle
Fitted PDBs: 9cbu, 9cbx
Q-score: 0.5565
Kretsch RC, Li S, Pintilie G, Palo MZ, Case DA, Das R, Chiu W
To Be Published
- Apo l-21 scai tetrahymena ribozyme with water and metal ions. (125 kDa, Complex from Tetrahymena thermophila)
- Rna (387-mer) (125 kDa, RNA from Tetrahymena thermophila)
- Water (18 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
Misfolded Tetrahymena ribozyme conformation 1
Resolution: 3.53 Å
EM Method: Single-particle
Fitted PDBs: 7xsk
Q-score: 0.302
Li S, Palo MZ, Pintilie G, Zhang X, Su Z, Kappel K, Chiu W, Zhang K, Das R
PNAS (2022) 119 pp. e2209146119-e2209146119 [ DOI: doi:10.1073/pnas.2209146119 Pubmed: 36067294 ]
- Rna (388-mer) (125 kDa, RNA from Tetrahymena thermophila)
- Misfolded tetrahymena ribozyme conformation 1 (120 kDa, Complex from Tetrahymena thermophila)
Misfolded Tetrahymena ribozyme conformation 2
Resolution: 3.84 Å
EM Method: Single-particle
Fitted PDBs: 7xsl
Q-score: 0.279
Li S, Palo MZ, Pintilie G, Zhang X, Su Z, Kappel K, Chiu W, Zhang K, Das R
PNAS (2022) 119 pp. e2209146119-e2209146119 [ DOI: doi:10.1073/pnas.2209146119 Pubmed: 36067294 ]
- Misfolded tetrahymena ribozyme conformation 2 (120 kDa, Complex from Tetrahymena thermophila)
- Rna (388-mer) (125 kDa, RNA from Tetrahymena thermophila)
Misfolded Tetrahymena ribozyme conformation 3
Resolution: 4.01 Å
EM Method: Single-particle
Fitted PDBs: 7xsm
Q-score: 0.261
Li S, Palo MZ, Pintilie G, Zhang X, Su Z, Kappel K, Chiu W, Zhang K, Das R
PNAS (2022) 119 pp. e2209146119-e2209146119 [ DOI: doi:10.1073/pnas.2209146119 Pubmed: 36067294 ]
- Misfolded tetrahymena ribozyme conformation 3 (120 kDa, Complex from Tetrahymena thermophila)
- Rna (388-mer) (125 kDa, RNA from Tetrahymena thermophila)
Native Tetrahymena ribozyme conformation
Resolution: 3.01 Å
EM Method: Single-particle
Fitted PDBs: 7xsn
Q-score: 0.416
Li S, Palo MZ, Pintilie G, Zhang X, Su Z, Kappel K, Chiu W, Zhang K, Das R
PNAS (2022) 119 pp. e2209146119-e2209146119 [ DOI: doi:10.1073/pnas.2209146119 Pubmed: 36067294 ]
- Native tetrahymena ribozyme conformation (120 kDa, Complex from Tetrahymena thermophila)
- Rna (387-mer) (125 kDa, RNA from Tetrahymena thermophila)
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 ]
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Mitochondrial super-complex i+iii2 of tetrahymena thermophila (2 MDa, Complex from Tetrahymena thermophila)
- Ymf57 (12 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (15 kDa, Protein from Tetrahymena thermophila)
- Rieske iron-sulfur protein, ubiquinol-cytochrome c reductase iron-sulfur subunit (30 kDa, Protein from Tetrahymena thermophila)
- Unk1 (2 kDa, Protein from Tetrahymena thermophila)
- Ndub2 (14 kDa, Protein from Tetrahymena thermophila)
- Ndua7 (33 kDa, Protein from Tetrahymena thermophila)
- Ribosomal protein l51/s25/ci-b8 domain protein (12 kDa, Protein from Tetrahymena thermophila)
- Ndutt12 (11 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase subunit 2 (20 kDa, Protein from Tetrahymena thermophila)
- Unk3 (1 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (26 kDa, Protein from Tetrahymena thermophila)
- Ndub4 (12 kDa, Protein from Tetrahymena thermophila)
- Acyl-coa synthetase (amp-forming)/amp-acid ligase ii (36 kDa, Protein from Tetrahymena thermophila)
- Ndutt6 (17 kDa, Protein from Tetrahymena thermophila)
- Zinc ion (65 Da, Ligand)
- Ndutt4 (24 kDa, Protein from Tetrahymena thermophila)
- Ndub8 (24 kDa, Protein from Tetrahymena thermophila)
- Nduph2 (22 kDa, Protein from Tetrahymena thermophila)
- Gram domain protein (10 kDa, Protein from Tetrahymena thermophila)
- Dnaj domain protein (36 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (29 kDa, Protein from Tetrahymena thermophila)
- Heme c (618 Da, Ligand)
- Nadh-ubiquinone oxidoreductase chain 1 (32 kDa, Protein from Tetrahymena thermophila)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Transmembrane protein, putative (14 kDa, Protein from Tetrahymena thermophila)
- Uqcrb (39 kDa, Protein from Tetrahymena thermophila)
- Etc complex i subunit motif protein (24 kDa, Protein from Tetrahymena thermophila)
- Ndua13 (21 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (24 kDa, Protein from Tetrahymena thermophila)
- Thioredoxin (19 kDa, Protein from Tetrahymena thermophila)
- Acyl carrier protein (15 kDa, Protein from Tetrahymena thermophila)
- Ymf65 (43 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (52 kDa, Protein from Tetrahymena thermophila)
- Ndub9 (22 kDa, Protein from Tetrahymena thermophila)
- M16 family peptidase, putative (53 kDa, Protein from Tetrahymena thermophila)
- Ubiquinone-10 (863 Da, Ligand)
- Transmembrane protein, putative (23 kDa, Protein from Tetrahymena thermophila)
- Ndutt8 (15 kDa, Protein from Tetrahymena thermophila)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Unk4 (17 kDa, Protein from Tetrahymena thermophila)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Nadh-ubiquinone oxidoreductase 1, chain, putative (28 kDa, Protein from Tetrahymena thermophila)
- Apocytochrome b (50 kDa, Protein from Tetrahymena thermophila)
- Ymf62 (30 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (16 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (9 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase subunit 10 (18 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)
- Ymf58 (13 kDa, Protein from Tetrahymena thermophila)
- Transcription factor apfi protein, putative (39 kDa, Protein from Tetrahymena thermophila)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nadh-ubiquinone oxidoreductase 75 kda subunit (80 kDa, Protein from Tetrahymena thermophila)
- Ndutt3 (35 kDa, Protein from Tetrahymena thermophila)
- Ndub6 (15 kDa, Protein from Tetrahymena thermophila)
- Nadh-ubiquinone oxidoreductase 24 kda subunit (31 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)
- Unk2 (1 kDa, Protein from Tetrahymena thermophila)
- Ndua1 (11 kDa, Protein from Tetrahymena thermophila)
- Peptidase m16 inactive domain protein (58 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase, putative (20 kDa, Protein from Tetrahymena thermophila)
- Ndua8 (28 kDa, Protein from Tetrahymena thermophila)
- Nduc2 (12 kDa, Protein from Tetrahymena thermophila)
- Ndutt9 (15 kDa, Protein from Tetrahymena thermophila)
- Gamma-carbonic anhydrase (28 kDa, Protein from Tetrahymena thermophila)
- Nadh-ubiquinone oxidoreductase chain 3 (14 kDa, Protein from Tetrahymena thermophila)
- Flavin mononucleotide (456 Da, Ligand)
- Nadh dehydrogenase subunit 9 (23 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase subunit 1 (7 kDa, Protein from Tetrahymena thermophila)
- Nadh-ubiquinone oxidoreductase complex i, 21 kda subunit (17 kDa, Protein from Tetrahymena thermophila)
- Ndutt10 (12 kDa, Protein from Tetrahymena thermophila)
- Acyl carrier protein (16 kDa, Protein from Tetrahymena thermophila)
- Gamma-carbonic anhydrase (25 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (7 kDa, Protein from Tetrahymena thermophila)
- Nad-dependent epimerase/dehydratase family protein (41 kDa, Protein from Tetrahymena thermophila)
- Ubiquinol-cytochrome c reductase hinge protein (10 kDa, Protein from Tetrahymena thermophila)
- Ndub7 (13 kDa, Protein from Tetrahymena thermophila)
- Lipid-a-disaccharide synthase (59 kDa, Protein from Tetrahymena thermophila)
- Unk5 (13 kDa, Protein from Tetrahymena thermophila)
- Zinc-finger protein (15 kDa, Protein from Tetrahymena thermophila)
- Cytochrome protein c1 (37 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (15 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (8 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (8 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase subunit 7 (51 kDa, Protein from Tetrahymena thermophila)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Ndub10 (22 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial (21 kDa, Protein from Tetrahymena thermophila)
- 2 iron, 2 sulfur cluster-binding protein (19 kDa, Protein from Tetrahymena thermophila)
- Nadh dehydrogenase subunit 5 (88 kDa, Protein from Tetrahymena thermophila)
- Iron/sulfur cluster (351 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 (22 kDa, Protein from Tetrahymena thermophila)
Cryo-EM structure of Tetrahymena thermophila mitochondrial complex IV, composite dimer model
Resolution: 3.02 Å
EM Method: Single-particle
Fitted PDBs: 7w5z
Q-score: 0.568
Zhou L, Maldonado M, Padavannil A, Guo F, Letts JA
Science (2022) 376 pp. 831-839 [ DOI: doi:10.1126/science.abn7747 Pubmed: 35357889 ]
- Cytochrome c oxidase subunit tt19 (19 kDa, Protein from Tetrahymena thermophila)
- Protein phosphatase 2c, putative (53 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit tt12 (26 kDa, Protein from Tetrahymena thermophila)
- 2-oxoglutarate/malate carrier protein (36 kDa, Protein from Tetrahymena thermophila)
- Oxoglutarate/malate translocator protein, putative (40 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase small tim subunit 6 (8 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit vb protein (75 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit tt22 (17 kDa, Protein from Tetrahymena thermophila)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Ymf68 (72 kDa, Protein from Tetrahymena thermophila)
- Unknown peptide (8 kDa, Protein from Tetrahymena thermophila)
- Surf1-like protein (35 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit tt15 (23 kDa, Protein from Tetrahymena thermophila)
- Ctf/nf-i domain-containing protein (116 kDa, Protein from Tetrahymena thermophila)
- Ymf75 (23 kDa, Protein from Tetrahymena thermophila)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome c oxidase subunit tt10 (28 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit tt16 (20 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (26 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (18 kDa, Protein from Tetrahymena thermophila)
- Carrier protein (37 kDa, Protein from Tetrahymena thermophila)
- Uncharacterized protein (20 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase small tim subunit 2 (8 kDa, Protein from Tetrahymena thermophila)
- Unknown peptide (2 kDa, Protein from Tetrahymena thermophila)
- Surf1-like protein (47 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit 6b-like (10 kDa, Protein from Tetrahymena thermophila)
- Iron-binding zinc finger cdgsh type protein (21 kDa, Protein from Tetrahymena thermophila)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Ymf67 (54 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (24 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit tt25 (12 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit tt18 (20 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit 6b (27 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (417 kDa, Protein from Tetrahymena thermophila)
- Heme-a (852 Da, Ligand)
- Cytochrome c oxidase subunit tt7 (37 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (15 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit tt11 (27 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase small tim subunit 5 (8 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (41 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase dimer (2 MDa, Complex from Tetrahymena thermophila)
- Tim10/ddp family zinc finger protein (8 kDa, Protein from Tetrahymena thermophila)
- Magnesium ion (24 Da, Ligand)
- Ymf70 (10 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit tt9 (29 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit tt26 (10 kDa, Protein from Tetrahymena thermophila)
- Unknown peptide (2 kDa, Protein from Tetrahymena thermophila)
- Cyclic nucleotide-binding domain protein (172 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase small tim subunit 4 (8 kDa, Protein from Tetrahymena thermophila)
- Zinc ion (65 Da, Ligand)
- Transmembrane protein, putative (20 kDa, Protein from Tetrahymena thermophila)
- Trab family protein (45 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (18 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (16 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit 2 (72 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase small tim subunit 3 (10 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (12 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (57 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (14 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit 7c (28 kDa, Protein from Tetrahymena thermophila)
- Transmembrane protein, putative (15 kDa, Protein from Tetrahymena thermophila)
- Protein transporter sec61 alpha subunit (53 kDa, Protein from Tetrahymena thermophila)
- Cardiolipin (1 kDa, Ligand)
- Cytochrome c oxidase acyl carrier-like subunit (14 kDa, Protein from Tetrahymena thermophila)
- Chromosome condensation regulator rcc1 repeat protein (41 kDa, Protein from Tetrahymena thermophila)
- Cytochrome c oxidase subunit 1 (80 kDa, Protein from Tetrahymena thermophila)