Structure of mycobacterial NDH2 (type II NADH:quinone oxidoreductase)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 9mqy
Q-score: 0.558
Liang Y, Bueler SA, Cook GM, Rubinstein JL
To Be Published
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 9mqz
Q-score: 0.514
Liang Y, Bueler SA, Cook GM, Rubinstein JL
To Be Published
- Ndh2 (non-electrogenic nadh:quinone oxidoreductase) from mycobacterium smegmatis (49 kDa, Complex from Mycolicibacterium smegmatis MC2 155)
- N-cyclohexyl-2-[(4-oxo-1,4-dihydroquinazolin-2-yl)sulfanyl]acetamide (317 Da, Ligand)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- Nadh:ubiquinone reductase (non-electrogenic) (53 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Yeast RAVE bound to V-ATPase V1 complex
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 9cop
Q-score: 0.252
Wang H, Tarsio M, Kane PM, Rubinstein JL
PNAS (2024) 121 pp. e2414511121-e2414511121 [ Pubmed: 39625975 DOI: doi:10.1073/pnas.2414511121 ]
- V-type proton atpase subunit f (13 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit e (26 kDa, Protein from Saccharomyces cerevisiae)
- Regulator of v-atpase in vacuolar membrane protein 2 (40 kDa, Protein from Saccharomyces cerevisiae)
- Suppressor of kinetochore protein 1 (22 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit h (54 kDa, Protein from Saccharomyces cerevisiae)
- Regulator of v-atpase in vacuolar membrane protein 1 (155 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit g (12 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase catalytic subunit a (118 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Yeast rave bound to v-atpase v1 complex (Complex from Saccharomyces cerevisiae)
- V-type proton atpase subunit b (57 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit d (29 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
Wang H, Tarsio M, Kane PM, Rubinstein JL
PNAS (2024) 121 pp. e2414511121-e2414511121 [ Pubmed: 39625975 DOI: doi:10.1073/pnas.2414511121 ]
- Rav2p (Protein from Saccharomyces cerevisiae)
- Skp1p (Protein from Saccharomyces cerevisiae)
- Yeast rave complex (Complex from Saccharomyces cerevisiae)
- Rav1p (Protein from Saccharomyces cerevisiae)
Locally refined map of yeast RAVE complex
Wang H, Tarsio M, Kane PM, Rubinstein JL
PNAS (2024) 121 pp. e2414511121-e2414511121 [ Pubmed: 39625975 DOI: doi:10.1073/pnas.2414511121 ]
- Rav2p (Protein from Saccharomyces cerevisiae)
- Yeast rave bound to v-atpase v1 complex (Complex from Saccharomyces cerevisiae)
- Skp1p (Protein from Saccharomyces cerevisiae)
- Rav1p (Protein from Saccharomyces cerevisiae)
Consensus map of yeast RAVE bound to V-ATPase V1
Wang H, Tarsio M, Kane PM, Rubinstein JL
PNAS (2024) 121 pp. e2414511121-e2414511121 [ Pubmed: 39625975 DOI: doi:10.1073/pnas.2414511121 ]
Mycobacterial supercomplex malate:quinone oxidoreductase assembly
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9dm1
Q-score: 0.38
Di Trani JM, Yu J, Courbon GM, Lobez Rodriguez AP, Cheung J, Liang Y, Coupland CE, Bueler SA, Cook GM, Brzezinski P, Rubinstein J
To Be Published
- Respiratory complex mqo:ciii2civ2sod2 from mycobacterium smegmatis (Complex from Mycolicibacterium smegmatis MC2 155)
- Heme c (618 Da, Ligand)
- Cytochrome aa3 subunit 2 (35 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Cytochrome bc1 complex cytochrome c subunit (23 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Probable malate:quinone oxidoreductase (54 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Heme-a (852 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Cytochrome c oxidase polypeptide 4 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Copper (ii) ion (63 Da, Ligand)
- Conserved transmembrane protein (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Lpqe protein (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- (2r)-3-(((2-aminoethoxy)(hydroxy)phosphoryl)oxy)-2-(palmitoyloxy)propyl (e)-octadec-9-enoate (717 Da, Ligand)
- Cytochrome c oxidase subunit ctaj (8 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Menaquinone-9 (785 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- (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)
- (2s)-1-(hexadecanoyloxy)propan-2-yl (10s)-10-methyloctadecanoate (594 Da, Ligand)
- Cytochrome bc1 complex cytochrome b subunit (59 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Cytochrome c oxidase subunit 1 (63 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Cardiolipin (1 kDa, Ligand)
- Uncharacterized protein msmeg_4692/msmei_4575 (14 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Superoxide dismutase [cu-zn] (21 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Cytochrome bc1 complex rieske iron-sulfur subunit (42 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Cytochrome aa3 subunit 3 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
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 [ DOI: doi:10.1038/s41467-024-52475-3 Pubmed: 39300056 ]
- Cytochrome c1, heme protein, mitochondrial (27 kDa, Protein from Saccharomyces cerevisiae)
- Heme c (618 Da, Ligand)
- Cytochrome b-c1 complex subunit 1, mitochondrial (47 kDa, Protein from Saccharomyces cerevisiae)
- Heme-a (852 Da, Ligand)
- Cytochrome b-c1 complex subunit 8, mitochondrial (10 kDa, Protein from Saccharomyces cerevisiae)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Cytochrome c oxidase subunit 9, mitochondrial (6 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit rieske, mitochondrial (20 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 26, mitochondrial (5 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 7, mitochondrial (14 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 2, mitochondrial (38 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 2 (26 kDa, Protein from Saccharomyces cerevisiae)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome c oxidase subunit 5a, mitochondrial (14 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 9, mitochondrial (6 kDa, Protein from Saccharomyces cerevisiae)
- Water (18 Da, Ligand)
- Cytochrome b-c1 complex subunit 10, mitochondrial (8 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 1 (58 kDa, Protein from Saccharomyces cerevisiae)
- 1,2-diacyl-sn-glycero-3-phoshocholine (734 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Cytochrome b-c1 complex subunit 6, mitochondrial (8 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 12, mitochondrial (8 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 7, mitochondrial (6 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 4, mitochondrial (12 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c oxidase subunit 13, mitochondrial (13 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)
- Calcium ion (40 Da, Ligand)
- Cytochrome b (43 kDa, Protein from Saccharomyces cerevisiae)
- Cardiolipin (1 kDa, Ligand)
- Di-palmitoyl-3-sn-phosphatidylethanolamine (691 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Dinuclear copper ion (127 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 6, mitochondrial (12 kDa, Protein from Saccharomyces cerevisiae)
- Iii2-iv respiratory supercomplex (Complex from Saccharomyces cerevisiae)