Cryo-EM structure of Polytomella Complex-I (peripheral arm)
Resolution: 2.88 Å
EM Method: Single-particle
Fitted PDBs: 7arc
Q-score: 0.563
Klusch N, Senkler J, Yildiz O, Kuhlbrandt W, Braun HP
Plant Cell (2021) 33 pp. 2072-2091 [ Pubmed: 33768254 DOI: doi:10.1093/plcell/koab092 ]
- Psst (18 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 13 kda (14 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B14.5a (13 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 24 kda (30 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 51 kda (51 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Polytomella complex i - peripheral arm (Complex from Polytomella sp. Pringsheim 198.80)
- Nd9 (25 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Tyky (26 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- S-[2-({n-[(2r)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate (540 Da, Ligand)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- B13 (17 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Sdap2 (13 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Zinc ion (65 Da, Ligand)
- 39 kda (41 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Water (18 Da, Ligand)
- B14 (16 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Iron/sulfur cluster (351 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 75 kda (77 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B8 (10 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B17.2 (18 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Flavin mononucleotide (456 Da, Ligand)
- Nd7 (45 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 18 kda (20 kDa, Protein from Polytomella sp. Pringsheim 198.80)
Cryo-EM structure of Polytomella Complex-I (complete composition)
Resolution: 3.11 Å
EM Method: Single-particle
Fitted PDBs: 7ard
Q-score: 0.557
Klusch N, Senkler J, Yildiz O, Kuhlbrandt W, Braun HP
Plant Cell (2021) 33 pp. 2072-2091 [ Pubmed: 33768254 DOI: doi:10.1093/plcell/koab092 ]
- Psst (18 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 13 kda (14 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Mwfe (8 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B14.5a (13 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- (7s)-4-hydroxy-n,n,n-trimethyl-9-oxo-7-[(palmitoyloxy)methyl]-3,5,8-trioxa-4-phosphahexacosan-1-aminium 4-oxide (763 Da, Ligand)
- B9 (4 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 24 kda (30 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 51 kda (51 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Cardiolipin (1 kDa, Ligand)
- Nd9 (25 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Tyky (26 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B14.7 (22 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Ca3 (24 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B15 (16 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Nd6 (15 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Nd3 (17 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Nd5 (58 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Nd4l (13 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Mnll (13 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Sdap1 (13 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Nuop7 (13 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Ca2 (33 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Nuop4 (9 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Nd1 (31 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- S-[2-({n-[(2r)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate (540 Da, Ligand)
- Aggg (7 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Ashi (16 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Kfyi (12 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 15 kda (8 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Pgiv (11 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B12 (6 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Nd2 (41 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B13 (17 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B18 (10 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Sdap2 (13 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Unknown (4 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Zinc ion (65 Da, Ligand)
- B14.5b (9 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 39 kda (41 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Cryo-em structure of polytomella complex-i (complete composition) (Complex from Polytomella sp. Pringsheim 198.80)
- Water (18 Da, Ligand)
- Complex i-b22 (14 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B14 (16 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- C1-fdx (23 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Nuop5 (15 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Unknown (3 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B16.6 (16 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Iron/sulfur cluster (351 Da, Ligand)
- Pdsw (18 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Cal (31 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Nd7 (45 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Phosphatidylethanolamine (734 Da, Ligand)
- 75 kda (77 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Esss (19 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B8 (10 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B17.2 (18 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Nuop8 (15 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Flavin mononucleotide (456 Da, Ligand)
- Nd4 (48 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 18 kda (20 kDa, Protein from Polytomella sp. Pringsheim 198.80)
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 ]
- B12-1 (8 kDa, Protein from Wild cabbage)
- B13 (19 kDa, Protein from Wild cabbage)
- Ca1 (30 kDa, Protein from Wild cabbage)
- P1 (11 kDa, Protein from Wild cabbage)
- B14.5b (9 kDa, Protein from Wild cabbage)
- Mwfe (7 kDa, Protein from Wild cabbage)
- 24kda (28 kDa, Protein from Wild cabbage)
- B8 (10 kDa, Protein from Wild cabbage)
- B14.5a (15 kDa, Protein from Wild cabbage)
- Nad3m (13 kDa, Protein from Wild cabbage)
- Esss (12 kDa, Protein from Wild cabbage)
- Nad6m (23 kDa, Protein from Wild cabbage)
- Cardiolipin (1 kDa, Ligand)
- (1s)-2-{[(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (720 Da, Ligand)
- Nad9m (22 kDa, Protein from Wild cabbage)
- Nad1m (36 kDa, Protein from Wild cabbage)
- Acpm2 (14 kDa, Protein from Wild cabbage)
- Mitochondrial respiratory complex i (Complex from Brassica oleracea)
- 15kda (9 kDa, Protein from Wild cabbage)
- Psst (24 kDa, Protein from Wild cabbage)
- Nad2m (55 kDa, Protein from Wild cabbage)
- Pgiv (11 kDa, Protein from Wild cabbage)
- Nad4lm (11 kDa, Protein from Wild cabbage)
- 39kda (43 kDa, Protein from Wild cabbage)
- Unk1 (1 kDa, Protein from Wild cabbage)
- B18 (11 kDa, Protein from Wild cabbage)
- Flavin mononucleotide (456 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- B9 (6 kDa, Protein from Wild cabbage)
- Tyky (25 kDa, Protein from Wild cabbage)
- Unk2 (1 kDa, Protein from Wild cabbage)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 20.9kda (11 kDa, Protein from Wild cabbage)
- Pdsw (12 kDa, Protein from Wild cabbage)
- Nad7m (45 kDa, Protein from Wild cabbage)
- Cal1 (27 kDa, Protein from Wild cabbage)
- Iron/sulfur cluster (351 Da, Ligand)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- B15 (8 kDa, Protein from Wild cabbage)
- B17.2 (18 kDa, Protein from Wild cabbage)
- B16.6 (16 kDa, Protein from Wild cabbage)
- Nad4m (55 kDa, Protein from Wild cabbage)
- 18kda (17 kDa, Protein from Wild cabbage)
- Nad5m (74 kDa, Protein from Wild cabbage)
- Ubiquinone-10 (863 Da, Ligand)
- 13kda (12 kDa, Protein from Wild cabbage)
- Phosphatidylinositol (887 Da, Ligand)
- Bicarbonate ion (61 Da, Ligand)
- 75kda (81 kDa, Protein from Wild cabbage)
- 51kda (53 kDa, Protein from Wild cabbage)
- B22 (13 kDa, Protein from Wild cabbage)
- B14 (15 kDa, Protein from Wild cabbage)
- Acpm1 (13 kDa, Protein from Wild cabbage)
- Aggg (7 kDa, Protein from Wild cabbage)
- P2 (11 kDa, Protein from Wild cabbage)
Assembly intermediate of the plant mitochondrial complex I
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7a24
Q-score: 0.207
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 ]
- Nad6m (23 kDa, Protein from Brassica oleracea)
- 39kda (43 kDa, Protein from Brassica oleracea)
- B14 (15 kDa, Protein from Brassica oleracea)
- Cardiolipin (1 kDa, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Tyky (25 kDa, Protein from Brassica oleracea)
- 75kda (81 kDa, Protein from Brassica oleracea)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- 24kda (28 kDa, Protein from Brassica oleracea)
- B16.6 (16 kDa, Protein from Brassica oleracea)
- Cal1 (27 kDa, Protein from Brassica oleracea)
- Mwfe (7 kDa, Protein from Brassica oleracea)
- Nad4lm (11 kDa, Protein from Brassica oleracea)
- Pgiv (11 kDa, Protein from Brassica oleracea)
- Phosphatidylinositol (887 Da, Ligand)
- 13kda (12 kDa, Protein from Brassica oleracea)
- Nad2m (55 kDa, Protein from Brassica oleracea)
- Flavin mononucleotide (456 Da, Ligand)
- Unk1 (1 kDa, Protein from Brassica oleracea)
- Iron/sulfur cluster (351 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Gldh (68 kDa, Protein from Brassica oleracea)
- (1s)-2-{[(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (720 Da, Ligand)
- Nad7m (45 kDa, Protein from Brassica oleracea)
- 51kda (53 kDa, Protein from Brassica oleracea)
- B13 (19 kDa, Protein from Brassica oleracea)
- B17.2 (18 kDa, Protein from Brassica oleracea)
- Acpm1 (13 kDa, Protein from Brassica oleracea)
- P2 (11 kDa, Protein from Brassica oleracea)
- Nad1m (36 kDa, Protein from Brassica oleracea)
- Plant mitochondrial respiratory complex i assembly intermediate in presence of gldh (Complex from Brassica oleracea)
- 18kda (17 kDa, Protein from Brassica oleracea)
- Mnll (11 kDa, Protein from Brassica oleracea)
- Nad9m (22 kDa, Protein from Brassica oleracea)
- Psst (24 kDa, Protein from Brassica oleracea)
- B8 (10 kDa, Protein from Brassica oleracea)
- B14.5b (9 kDa, Protein from Brassica oleracea)
- 15kda (9 kDa, Protein from Brassica oleracea)
- B14.5a (15 kDa, Protein from Brassica oleracea)
- Nad3m (13 kDa, Protein from Brassica oleracea)
- B9 (6 kDa, Protein from Brassica oleracea)
- Bicarbonate ion (61 Da, Ligand)
- Ca1 (30 kDa, Protein from Brassica oleracea)
Entire ovine respiratory complex I, Combined Map
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 5lnk
Q-score: 0.408
Fiedorczuk K, Letts JA, Degliesposti G, Kaszuba K, Skehel M, Sazanov LA
Nature (2016) 538 pp. 406-410 [ Pubmed: 27595392 DOI: doi:10.1038/nature19794 ]
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Mitochondrial complex i, nd3 subunit (13 kDa, Protein from Sheep)
- Mitochondrial complex i, psst subunit (20 kDa, Protein from Sheep)
- 4'-phosphopantetheine (358 Da, Ligand)
- Mitochondrial complex i, 18 kda subunit (15 kDa, Protein from Sheep)
- Acyl carrier protein (10 kDa, Protein from Sheep)
- Mitochondrial complex i, aggg subunit (8 kDa, Protein from Sheep)
- Flavin mononucleotide (456 Da, Ligand)
- Mitochondrial complex i, 10 kda subunit (8 kDa, Protein from Sheep)
- Mitochondrial complex i, b22 subunit (21 kDa, Protein from Sheep)
- Mitochondrial complex i, 24 kda subunit (23 kDa, Protein from Sheep)
- Mitochondrial complex i, b18 subunit (16 kDa, Protein from Sheep)
- Mitochondrial complex i, b17 subunit (15 kDa, Protein from Sheep)
- Mitochondrial complex i, 49 kda subunit (47 kDa, Protein from Sheep)
- 1,2-diacyl-sn-glycero-3-phosphoethanolamine (748 Da, Ligand)
- Mitochondrial complex i, b12 subunit (11 kDa, Protein from Sheep)
- Iron/sulfur cluster (351 Da, Ligand)
- Mitochondrial complex i, 51 kda subunit (48 kDa, Protein from Sheep)
- Zinc ion (65 Da, Ligand)
- Mitochondrial complex i, 30 kda subunit (26 kDa, Protein from Sheep)
- Mitochondrial complex i, 13 kda subunit (10 kDa, Protein from Sheep)
- Mitochondrial complex i, b16.6 subunit (16 kDa, Protein from Sheep)
- Mitochondrial complex i, nd1 subunit (35 kDa, Protein from Sheep)
- Mitochondrial complex i, b17.2 subunit (17 kDa, Protein from Sheep)
- Mitochondrial complex i, b15 subunit (14 kDa, Protein from Sheep)
- Mitochondrial complex i, b14.5b subunit (14 kDa, Protein from Sheep)
- Mitochondrial complex i, nd4l subunit (10 kDa, Protein from Sheep)
- Mitochondrial complex i, esss subunit (14 kDa, Protein from Sheep)
- Mitochondrial complex i, b14 subunit (14 kDa, Protein from Sheep)
- Mitochondrial complex i, 75 kda subunit (77 kDa, Protein from Sheep)
- Mitochondrial complex i, nd2 subunit (39 kDa, Protein from Sheep)
- Mitochondrial complex i, nd6 subunit (19 kDa, Protein from Sheep)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Mitochondrial complex i, b14.5a subunit (12 kDa, Protein from Sheep)
- Mitochondrial complex i, nd5 subunit (67 kDa, Protein from Sheep)
- Mitochondrial complex i, b13 subunit (13 kDa, Protein from Sheep)
- Mitochondrial complex i, kfyi subunit (5 kDa, Protein from Sheep)
- Mitochondrial complex i, 42 kda subunit (36 kDa, Protein from Sheep)
- Mitochondrial complex i, pdsw subunit (20 kDa, Protein from Sheep)
- Mitochondrial complex i, pgiv subunit (20 kDa, Protein from Sheep)
- Mitochondrial complex i, b14.7 subunit (10 kDa, Protein from Sheep)
- Mitochondrial complex i, tyky subunit (20 kDa, Protein from Sheep)
- Mitochondrial complex i, mnll subunit (6 kDa, Protein from Sheep)
- Mitochondrial complex i, 39 kda subunit (38 kDa, Protein from Sheep)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Mitochondrial complex i, 15 kda subunit (12 kDa, Protein from Sheep)
- Mitochondrial complex i, mwfe subunit (8 kDa, Protein from Sheep)
- Mitochondrial complex i, sgdh subunit (16 kDa, Protein from Sheep)
- Mitochondrial complex i, nd4 subunit (52 kDa, Protein from Sheep)
- S-[2-({n-[(2s)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] tetradecanethioate (568 Da, Ligand)
- Mitochondrial complex i, b8 subunit (10 kDa, Protein from Sheep)
- Mitochondrial complex i (970 kDa, Complex from Ovis aries)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial (18 kDa, Protein from Sheep)
- Mitochondrial complex i, b9 subunit (9 kDa, Protein from Sheep)
Architecture of ovine respiratory supercomplex (I-III2-IV) conformation loose
Resolution: 6.7 Å
EM Method: Single-particle
Fitted PDBs: 5j7y
Q-score: 0.265
Letts JA, Fiedorczuk K, Sazanov LA
Nature (2016) 537 pp. 644-648 [ Pubmed: 27654913 DOI: doi:10.1038/nature19774 ]
- B14 (Protein from Sheep)
- 49 kda (Protein from Sheep)
- Complex iii 14 kda (Protein from Sheep)
- B14.5b (Protein from Sheep)
- Mwfe (Protein from Sheep)
- Complex iii core 2 (Protein from Sheep)
- Aggg (Protein from Sheep)
- Psst (Protein from Sheep)
- Cox7a (Protein from Sheep)
- 42 kda (Protein from Sheep)
- Sdap (Protein from Sheep)
- B16.6 (Protein from Sheep)
- B22 (Protein from Sheep)
- Sgdh (Protein from Sheep)
- B14.5a (Protein from Sheep)
- Nd1 (Protein from Sheep)
- 15 kda (Protein from Sheep)
- Respiratory complex i (Complex from Ovis aries)
- Complex iii 7.2 kda (Protein from Sheep)
- Cox7c (Protein from Sheep)
- Complex iii cytochrome c1 (Protein from Sheep)
- Respiratory complex iii (Complex from Ovis aries)
- 39 kda (Protein from Sheep)
- Pdsw (Protein from Sheep)
- Cox2 (Protein from Sheep)
- B15 (Protein from Sheep)
- 30 kda (Protein from Sheep)
- Cox7b (Protein from Sheep)
- Complex iii 11 kda (Protein from Sheep)
- Pgiv (Protein from Sheep)
- Cox5a (Protein from Sheep)
- B13 (Protein from Sheep)
- Cox8b (Protein from Sheep)
- Complex iii cytochrome b (Protein from Sheep)
- Nd4l (Protein from Sheep)
- 24 kda (Protein from Sheep)
- 10 kda (Protein from Sheep)
- Complex iii 6.4 kda (Protein from Sheep)
- Ovine respiratory supercomplex (i-iii2-iv), conformation loose (1 MDa, Complex from Ovis aries)
- B9 (Protein from Sheep)
- B12 (Protein from Sheep)
- Ashi (Protein from Sheep)
- Nd4 (Protein from Sheep)
- Cox4 (Protein from Sheep)
- Cox6c (Protein from Sheep)
- B17 (Protein from Sheep)
- B17.2 (Protein from Sheep)
- 51 kda (Protein from Sheep)
- Cox3 (Protein from Sheep)
- Nd3 (Protein from Sheep)
- Cox5b (Protein from Sheep)
- Nd5 (Protein from Sheep)
- Complex iii core 1 (Protein from Sheep)
- Tyky (Protein from Sheep)
- B14.7 (Protein from Sheep)
- Cox6b1 (Protein from Sheep)
- B8 (Protein from Sheep)
- B18 (Protein from Sheep)
- Mnll (Protein from Sheep)
- Kfyi (Protein from Sheep)
- Nd6 (Protein from Sheep)
- Complex iii qp-c (Protein from Sheep)
- Complex iii 8 kda (Protein from Sheep)
- 18 kda (Protein from Sheep)
- Cox1 (Protein)
- Cox6a2 (Protein from Sheep)
- Nd2 (Protein from Sheep)
- Respiratory complex iv (Complex from Ovis aries)
- Esss (Protein from Sheep)
- 13 kda (Protein from Sheep)
- Complex iii rieske (Protein from Sheep)
- 75 kda (Protein from Sheep)