Komagataella pastoris Cytochrome c oxidase (9 subunits) in complex with human VMAT2
Resolution: 3.26 Å
EM Method: Single-particle
Fitted PDBs: 8uck
Q-score: 0.486
To Be Published
- Heme-a (852 Da, Ligand)
- Cytochrome c oxidase subunit 2 (26 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 7 (6 kDa, Protein from Komagataella pastoris)
- Phosphatidylethanolamine (734 Da, Ligand)
- Dinuclear copper ion (127 Da, Ligand)
- Cytochrome c oxidase subunit 4 (12 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 6 (11 kDa, Protein from Komagataella pastoris)
- Synaptic vesicular amine transporter (55 kDa, Protein from Homo sapiens)
- Cytochrome c oxidase subunit 1 (58 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 8 (5 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 3 (30 kDa, Protein from Komagataella pastoris)
- Komagataella pastoris cytochrome c oxidase (9 subunits) in complex with human vmat2 (225 kDa, Complex from Homo sapiens)
- Cytochrome c oxidase subunit 9 (6 kDa, Protein from Komagataella pastoris)
- Zinc ion (65 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome c oxidase subunit 5 (14 kDa, Protein from Komagataella pastoris)
Komagataella pastoris Cytochrome c oxidase in complex with human VMAT2 and Tetrabenazine
Resolution: 3.18 Å
EM Method: Single-particle
Fitted PDBs: 8ucl
Q-score: 0.511
To Be Published
- Heme-a (852 Da, Ligand)
- Cytochrome c oxidase subunit 2 (26 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 7 (6 kDa, Protein from Komagataella pastoris)
- Phosphatidylethanolamine (734 Da, Ligand)
- Dinuclear copper ion (127 Da, Ligand)
- Cytochrome c oxidase subunit 4 (12 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 6 (11 kDa, Protein from Komagataella pastoris)
- Synaptic vesicular amine transporter (55 kDa, Protein from Homo sapiens)
- Cytochrome c oxidase-vmat2-tetrabenazine particle (225 kDa, Complex from Homo sapiens)
- Cytochrome c oxidase subunit 1 (58 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 3 (30 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 8 (5 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 9 (6 kDa, Protein from Komagataella pastoris)
- Zinc ion (65 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome c oxidase subunit 5 (14 kDa, Protein from Komagataella pastoris)
- (3s,5r,11bs)-9,10-dimethoxy-3-(2-methylpropyl)-1,3,4,6,7,11b-hexahydro-2h-pyrido[2,1-a]isoquinolin-2-one (317 Da, Ligand)
Komagataella pastoris Cytochrome c oxidase in complex with human VMAT2 and Reserpine
Resolution: 3.14 Å
EM Method: Single-particle
Fitted PDBs: 8ucm
Q-score: 0.513
To Be Published
- Heme-a (852 Da, Ligand)
- Cytochrome c oxidase subunit 2 (26 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 7 (6 kDa, Protein from Komagataella pastoris)
- Reserpine (608 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- Dinuclear copper ion (127 Da, Ligand)
- Cytochrome c oxidase subunit 4 (12 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 6 (11 kDa, Protein from Komagataella pastoris)
- Synaptic vesicular amine transporter (55 kDa, Protein from Homo sapiens)
- Cytochrome c oxidase-vmat2-reserpine particle (225 kDa, Complex from Homo sapiens)
- Cytochrome c oxidase subunit 1 (58 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 3 (30 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 8 (5 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 9 (6 kDa, Protein from Komagataella pastoris)
- Zinc ion (65 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome c oxidase subunit 5 (14 kDa, Protein from Komagataella pastoris)
Komagataella pastoris Cytochrome c oxidase in complex with human VMAT2 and Histamine
Resolution: 3.31 Å
EM Method: Single-particle
Fitted PDBs: 8ucn
Q-score: 0.486
To Be Published
- Histamine (111 Da, Ligand)
- Heme-a (852 Da, Ligand)
- Cytochrome c oxidase subunit 2 (26 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 7 (6 kDa, Protein from Komagataella pastoris)
- Phosphatidylethanolamine (734 Da, Ligand)
- Dinuclear copper ion (127 Da, Ligand)
- Cytochrome c oxidase subunit 4 (12 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 6 (11 kDa, Protein from Komagataella pastoris)
- Synaptic vesicular amine transporter (55 kDa, Protein from Homo sapiens)
- Cytochrome c oxidase subunit 1 (58 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 8 (5 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 3 (30 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 9 (6 kDa, Protein from Komagataella pastoris)
- Zinc ion (65 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome c oxidase subunit 5 (14 kDa, Protein from Komagataella pastoris)
- Komagataella pastoris cytochrome c oxidase in complex with human vmat2 and histamine (225 kDa, Complex from Homo sapiens)
Resolution: 3.25 Å
EM Method: Single-particle
Fitted PDBs: 8uco
Q-score: 0.484
To Be Published
- Heme-a (852 Da, Ligand)
- Cytochrome c oxidase subunit 2 (26 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 7 (6 kDa, Protein from Komagataella pastoris)
- Phosphatidylethanolamine (734 Da, Ligand)
- (2s)-1-phenylpropan-2-amine (135 Da, Ligand)
- Cytochrome c oxidase subunit 4 (12 kDa, Protein from Komagataella pastoris)
- Dinuclear copper ion (127 Da, Ligand)
- Cytochrome c oxidase subunit 6 (11 kDa, Protein from Komagataella pastoris)
- Synaptic vesicular amine transporter (55 kDa, Protein from Homo sapiens)
- Cytochrome c oxidase subunit 1 (58 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 8 (5 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 3 (30 kDa, Protein from Komagataella pastoris)
- Komagataella pastoris cytochrome c oxidase in complex with human vmat2 and amphetamin (225 kDa, Complex from Homo sapiens)
- Cytochrome c oxidase subunit 9 (6 kDa, Protein from Komagataella pastoris)
- Zinc ion (65 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome c oxidase subunit 5 (14 kDa, Protein from Komagataella pastoris)
Komagataella pastoris Cytochrome c oxidase in complex with human VMAT2 and Serotonin
Resolution: 3.28 Å
EM Method: Single-particle
Fitted PDBs: 8ucp
Q-score: 0.491
To Be Published
- Serotonin (176 Da, Ligand)
- Cytochrome c oxidase subunit 2 (26 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 7 (6 kDa, Protein from Komagataella pastoris)
- Heme-a (852 Da, Ligand)
- Cytochrome c oxidase-vmat2-serotonin complex (225 kDa, Complex from Homo sapiens)
- Phosphatidylethanolamine (734 Da, Ligand)
- Dinuclear copper ion (127 Da, Ligand)
- Cytochrome c oxidase subunit 4 (12 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 6 (11 kDa, Protein from Komagataella pastoris)
- Synaptic vesicular amine transporter (55 kDa, Protein from Homo sapiens)
- Cytochrome c oxidase subunit 1 (58 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 8 (5 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 3 (30 kDa, Protein from Komagataella pastoris)
- Cytochrome c oxidase subunit 9 (6 kDa, Protein from Komagataella pastoris)
- Zinc ion (65 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome c oxidase subunit 5 (14 kDa, Protein from Komagataella pastoris)
Respiratory Complex IV from S. cerevisiae
Resolution: 3.87 Å
EM Method: Single-particle
Fitted PDBs: 7z10
Q-score: 0.433
Ing G, Hartley AM, Pinotsis N, Marechal A
Biochim Biophys Acta Bioenerg (2022) 1863 pp. 148591-148591 [ DOI: doi:10.1016/j.bbabio.2022.148591 Pubmed: 35839926 ]
- Cytochrome c oxidase subunit 1 (58 kDa, Protein from Saccharomyces cerevisiae S288C)
- Cytochrome c oxidase subunit 3; synonym: cytochrome c oxidase polypeptide iii, cox3 (30 kDa, Protein from Saccharomyces cerevisiae S288C)
- Heme-a (852 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Cytochrome c oxidase (Complex)
- Cytochrome c oxidase subunit 2 (26 kDa, Protein from Saccharomyces cerevisiae S288C)
- Cytochrome c oxidase polypeptide 5a, mitochondrial (14 kDa, Protein from Saccharomyces cerevisiae S288C)
- Cytochrome c oxidase subunit 7; synonym: cytochrome c oxidase polypeptide vii, cox7 (6 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dinuclear copper ion (127 Da, Ligand)
- Di-palmitoyl-3-sn-phosphatidylethanolamine (691 Da, Ligand)
- Cytochrome c oxidase polypeptide viii, mitochondrial (5 kDa, Protein from Saccharomyces cerevisiae S288C)
- Cytochrome c oxidase subunit 4, mitochondrial (13 kDa, Protein from Saccharomyces cerevisiae S288C)
- Cytochrome c oxidase (Complex from Saccharomyces cerevisiae S288C)
- Cytochrome c oxidase subunit 6, mitochondrial (12 kDa, Protein from Saccharomyces cerevisiae S288C)
- Zinc ion (65 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome c oxidase subunit 7a; synonym: cytochrome c oxidase polypeptide viia, cox9 (6 kDa, Protein from Saccharomyces cerevisiae S288C)
Resolution: 2.94 Å
EM Method: Single-particle
Fitted PDBs: 8dh6
Q-score: 0.534
Godoy AS, Song Y, Cheruvara H, Quigley A, Oliva G
To Be Published
- Magnesium ion (24 Da, Ligand)
- Heme-a (852 Da, Ligand)
- Cytochrome c oxidase subunit 1 (58 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 5a, mitochondrial (14 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 4, mitochondrial (14 kDa, Protein from Saccharomyces cerevisiae)
- Complex iv (Complex from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 2 (26 kDa, Protein from Saccharomyces cerevisiae)
- Di-palmitoyl-3-sn-phosphatidylethanolamine (691 Da, Ligand)
- Cytochrome c oxidase subunit 8, mitochondrial (5 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 3 (30 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 7, mitochondrial (6 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 9, mitochondrial (6 kDa, Protein from Saccharomyces cerevisiae)
- Calcium ion (40 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Cytochrome c oxidase subunit 6, mitochondrial (12 kDa, Protein from Saccharomyces cerevisiae)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8d4t
Q-score: 0.545
Di Trani JM, Moe A, Riepl D, Saura P, Kaila VRI, Brzezinski P, Rubinstein JL
PNAS (2022) 119 pp. e2205228119-e2205228119 [ DOI: doi:10.1073/pnas.2205228119 Pubmed: 35858451 ]
- Zinc ion (65 Da, Ligand)
- Cytochrome c oxidase subunit 1 (56 kDa, Protein from Bos taurus)
- Sodium ion (22 Da, Ligand)
- Cytochrome c oxidase subunit 3 (29 kDa, Protein from Bos taurus)
- Cytochrome c oxidase (Complex from Bos taurus)
- (1s)-2-{[(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(stearoyloxy)methyl]ethyl (5e,8e,11e,14e)-icosa-5,8,11,14-tetraenoate (768 Da, Ligand)
- Cytochrome c oxidase subunit 7b, mitochondrial (5 kDa, Protein from Bos taurus)
- Cytochrome c oxidase subunit 7c, mitochondrial (5 kDa, Protein from Bos taurus)
- Cytochrome c oxidase subunit 6a2, mitochondrial (8 kDa, Protein from Bos taurus)
- Cytochrome c oxidase subunit 6b1 (9 kDa, Protein from Bos taurus)
- (1r)-2-{[{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl (11e)-octadec-11-enoate (749 Da, Ligand)
- Cytochrome c oxidase subunit 8a, mitochondrial (4 kDa, Protein from Bos taurus)
- Cytochrome c oxidase subunit 7a1, mitochondrial (6 kDa, Protein from Bos taurus)
- Cytochrome c oxidase subunit 5b, mitochondrial (10 kDa, Protein from Bos taurus)
- Cytochrome c oxidase subunit 2 (26 kDa, Protein from Bos taurus)
- Copper (ii) ion (63 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Heme-a (852 Da, Ligand)
- Cytochrome c oxidase subunit 5a, mitochondrial (11 kDa, Protein from Bos taurus)
- Cytochrome c oxidase subunit 6c (8 kDa, Protein from Bos taurus)
- Cytochrome c oxidase subunit 4 isoform 1, mitochondrial (16 kDa, Protein from Bos taurus)
- (3beta,14beta,17beta,25r)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en (544 Da, Ligand)
Cytochrome c oxidase structure in P-state
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 7ate
Q-score: 0.749
To Be Published
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Heme-a (852 Da, Ligand)
- Cytochrome c oxidase with four subunits reconstituted in lipid nanodisc (127 kDa, Complex from Paracoccus denitrificans)
- Manganese (ii) ion (54 Da, Ligand)
- Water (18 Da, Ligand)
- Cytochrome c oxidase subunit 1-beta (62 kDa, Protein from Paracoccus denitrificans)
- Dinuclear copper ion (127 Da, Ligand)
- Cytochrome c oxidase subunit 4 (5 kDa, Protein from Paracoccus denitrificans)
- (1r)-2-{[{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl (11e)-octadec-11-enoate (749 Da, Ligand)
- Hydrogen peroxide (34 Da, Ligand)
- Cytochrome c oxidase subunit 2 (32 kDa, Protein from Paracoccus denitrificans)
- Calcium ion (40 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome c oxidase subunit 3 (30 kDa, Protein from Paracoccus denitrificans)