Mycobacterial supercomplex malate:quinone oxidoreductase assembly
Di Trani JM, Yu J, Courbon GM, Lobez Rodriguez AP, Cheung CY, Liang Y, Coupland CE, Bueler SA, Cook GM, Brzezinski P, Rubinstein JL
PNAS (2025) 122 pp. e2423761122-e2423761122 [ DOI: doi:10.1073/pnas.2423761122 Pubmed: 39969994 ]
- (2r)-2-(hexadecanoyloxy)-3-{[(s)-hydroxy{[(1r,2r,3r,4r,5r,6s)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9s)-9-methyloctadecanoate (853 Da, Ligand)
- Lpqe protein (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Palmitic acid (256 Da, Ligand)
- Probable malate:quinone oxidoreductase (54 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Heme-a (852 Da, Ligand)
- (2r)-3-(((2-aminoethoxy)(hydroxy)phosphoryl)oxy)-2-(palmitoyloxy)propyl (e)-octadec-9-enoate (717 Da, Ligand)
- Cytochrome bc1 complex cytochrome b subunit (59 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Cytochrome aa3 subunit 2 (35 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Conserved transmembrane protein (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- (2s)-1-(hexadecanoyloxy)propan-2-yl (10s)-10-methyloctadecanoate (594 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Superoxide dismutase [cu-zn] (21 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Cytochrome c oxidase subunit 1 (63 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Uncharacterized protein msmeg_4692/msmei_4575 (14 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome c oxidase subunit ctaj (8 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Cytochrome bc1 complex cytochrome c subunit (23 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Cytochrome c oxidase polypeptide 4 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Heme c (618 Da, Ligand)
- Cytochrome aa3 subunit 3 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Menaquinone-9 (785 Da, Ligand)
- Cytochrome bc1 complex rieske iron-sulfur subunit (42 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Respiratory complex mqo:ciii2civ2sod2 from mycobacterium smegmatis (Complex from Mycolicibacterium smegmatis MC2 155)
Di Trani JM, Yu J, Courbon GM, Lobez Rodriguez AP, Cheung CY, Liang Y, Coupland CE, Bueler SA, Cook GM, Brzezinski P, Rubinstein JL
PNAS (2025) 122 pp. e2423761122-e2423761122 [ DOI: doi:10.1073/pnas.2423761122 Pubmed: 39969994 ]
Di Trani JM, Yu J, Courbon GM, Lobez Rodriguez AP, Cheung CY, Liang Y, Coupland CE, Bueler SA, Cook GM, Brzezinski P, Rubinstein JL
PNAS (2025) 122 pp. e2423761122-e2423761122 [ DOI: doi:10.1073/pnas.2423761122 Pubmed: 39969994 ]
III2IV respiratory supercomplex from Saccharomyces cerevisiae
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 9etz
Q-score: 0.639
Lobez AP, Wu F, Di Trani JM, Rubinstein JL, Oliveberg M, Brzezinski P, Moe A
Nat Commun (2024) 15 pp. 8241-8241 [ Pubmed: 39300056 DOI: doi:10.1038/s41467-024-52475-3 ]
- Cytochrome c oxidase subunit 26, mitochondrial (5 kDa, Protein from Saccharomyces cerevisiae)
- Cardiolipin (1 kDa, Ligand)
- Cytochrome c oxidase subunit 1 (58 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 2, mitochondrial (38 kDa, Protein from Saccharomyces cerevisiae)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Cytochrome c oxidase subunit 3 (30 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Cytochrome c oxidase subunit 12, mitochondrial (8 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 4, mitochondrial (12 kDa, Protein from Saccharomyces cerevisiae)
- Iii2-iv respiratory supercomplex (Complex from Saccharomyces cerevisiae)
- Cytochrome b (43 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 7, mitochondrial (6 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 2 (26 kDa, Protein from Saccharomyces cerevisiae)
- 5-(3,7,11,15,19,23-hexamethyl-tetracosa-2,6,10,14,18,22-hexaenyl)-2,3-dimethoxy-6-methyl-benzene-1,4-diol (592 Da, Ligand)
- Cytochrome b-c1 complex subunit 6, mitochondrial (8 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 9, mitochondrial (6 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 13, mitochondrial (13 kDa, Protein from Saccharomyces cerevisiae)
- Calcium ion (40 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Heme-a (852 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- 1,2-diacyl-sn-glycero-3-phoshocholine (734 Da, Ligand)
- Cytochrome c oxidase subunit 5a, mitochondrial (14 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c1, heme protein, mitochondrial (27 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 1, mitochondrial (47 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 8, mitochondrial (10 kDa, Protein from Saccharomyces cerevisiae)
- Heme c (618 Da, Ligand)
- Cytochrome b-c1 complex subunit 7, mitochondrial (14 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 10, mitochondrial (8 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 9, mitochondrial (6 kDa, Protein from Saccharomyces cerevisiae)
- Water (18 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Di-palmitoyl-3-sn-phosphatidylethanolamine (691 Da, Ligand)
- Cytochrome b-c1 complex subunit rieske, mitochondrial (20 kDa, Protein from Saccharomyces cerevisiae)
- Dinuclear copper ion (127 Da, Ligand)
- Cytochrome c oxidase subunit 6, mitochondrial (12 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 8, mitochondrial (5 kDa, Protein from Saccharomyces cerevisiae)
III2IV respiratory supercomplex from Saccharomyces cerevisiae (consensus map)
Lobez AP, Wu F, Di Trani JM, Rubinstein JL, Oliveberg M, Brzezinski P, Moe A
Nat Commun (2024) 15 pp. 8241-8241 [ Pubmed: 39300056 DOI: doi:10.1038/s41467-024-52475-3 ]
Local refinement of CIII2 from Saccharomyces cerevisiae
Lobez AP, Wu F, Di Trani JM, Rubinstein JL, Oliveberg M, Brzezinski P, Moe A
Nat Commun (2024) 15 pp. 8241-8241 [ Pubmed: 39300056 DOI: doi:10.1038/s41467-024-52475-3 ]
Local refinement of CIV from Saccharomyces cerevisiae
Lobez AP, Wu F, Di Trani JM, Rubinstein JL, Oliveberg M, Brzezinski P, Moe A
Nat Commun (2024) 15 pp. 8241-8241 [ Pubmed: 39300056 DOI: doi:10.1038/s41467-024-52475-3 ]
cytochrome bc1-cbb3 supercomplex from Pseudomonas aeruginosa
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8smr
Q-score: 0.608
Di Trani JM, Gheorghita AA, Turner M, Brzezinski P, Adelroth P, Vahidi S, Howell PL, Rubinstein JL
PNAS (2023) 120 pp. e2307093120-e2307093120 [ Pubmed: 37751552 DOI: doi:10.1073/pnas.2307093120 ]
- Ubiquinone-10 (863 Da, Ligand)
- Cytochrome c1 (26 kDa, Protein from Pseudomonas aeruginosa)
- (2r)-2-(methoxymethyl)-4-{[(25r)-spirost-5-en-3beta-yl]oxy}butyl 4-o-alpha-d-glucopyranosyl-beta-d-glucopyranoside (855 Da, Ligand)
- Ubiquinol-cytochrome c reductase iron-sulfur subunit (20 kDa, Protein from Pseudomonas aeruginosa)
- Copper (ii) ion (63 Da, Ligand)
- Cbb3-type cytochrome c oxidase subunit (34 kDa, Protein from Pseudomonas aeruginosa)
- Cytochrome bc1-cbb3 supercomplex (374 MDa, Complex from Pseudomonas aeruginosa)
- Cytochrome-c oxidase (52 kDa, Protein from Pseudomonas aeruginosa)
- Cbb3-type cytochrome c oxidase subunit ii (22 kDa, Protein from Pseudomonas aeruginosa)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Cytochrome b (46 kDa, Protein from Pseudomonas aeruginosa)
- Cytochrome c4 (18 kDa, Protein from Pseudomonas aeruginosa)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Heme c (618 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Cytochrome c5 (13 kDa, Protein from Pseudomonas aeruginosa)
cytochrome bc1-cbb3 supercomplex from Pseudomonas aeruginosa
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8snh
Q-score: 0.613
Di Trani JM, Gheorghita AA, Turner M, Brzezinski P, Adelroth P, Vahidi S, Howell PL, Rubinstein JL
PNAS (2023) 120 pp. e2307093120-e2307093120 [ Pubmed: 37751552 DOI: doi:10.1073/pnas.2307093120 ]
- Ubiquinone-10 (863 Da, Ligand)
- Cytochrome c1 (26 kDa, Protein from Pseudomonas aeruginosa)
- (2r)-2-(methoxymethyl)-4-{[(25r)-spirost-5-en-3beta-yl]oxy}butyl 4-o-alpha-d-glucopyranosyl-beta-d-glucopyranoside (855 Da, Ligand)
- Ubiquinol-cytochrome c reductase iron-sulfur subunit (20 kDa, Protein from Pseudomonas aeruginosa)
- Cbb3-type cytochrome c oxidase subunit (33 kDa, Protein from Pseudomonas aeruginosa)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome-c oxidase (52 kDa, Protein from Pseudomonas aeruginosa)
- Cytochrome bc1-cbb3 supercomplex (374 MDa, Complex from Pseudomonas aeruginosa)
- Cbb3-type cytochrome c oxidase subunit ii (22 kDa, Protein from Pseudomonas aeruginosa)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Cytochrome b (46 kDa, Protein from Pseudomonas aeruginosa)
- Cytochrome c4 (18 kDa, Protein from Pseudomonas aeruginosa)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Heme c (618 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Cytochrome c5 (13 kDa, Protein from Pseudomonas aeruginosa)
cytochrome bc1 complex from Pseudomonas aeruginosa
Di Trani JM, Gheorghita AA, Turner M, Brzezinski P, Adelroth P, Vahidi S, Howell PL, Rubinstein JL
PNAS (2023) 120 pp. e2307093120-e2307093120 [ Pubmed: 37751552 DOI: doi:10.1073/pnas.2307093120 ]
- Cytochrome bc1-cbb3 supercomplex (374 MDa, Complex from Pseudomonas aeruginosa)