Cryo-EM structure of the NADH:ferredoxin oxidoreductase RNF from Azotobacter vinelandii, NADH added
Resolution: 3.19 Å
EM Method: Single-particle
Fitted PDBs: 8rb9
Q-score: 0.491
Nat Chem Biol (2024) [ DOI: doi:10.1038/s41589-024-01641-1 Pubmed: 38890433 ]
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Flavin mononucleotide (456 Da, Ligand from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit a (19 kDa, Protein from Azotobacter vinelandii DJ)
- Iron/sulfur cluster (351 Da, Ligand)
- Heptameric complex nadh:ferredoxin oxidoreductase rnf1 (188 kDa, Complex from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit c (52 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit e (25 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit b (17 kDa, Protein from Azotobacter vinelandii DJ)
- Riboflavin (376 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit d (39 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit g (24 kDa, Protein from Azotobacter vinelandii DJ)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Protein rnfh (9 kDa, Protein from Azotobacter vinelandii DJ)
Resolution: 3.24 Å
EM Method: Single-particle
Fitted PDBs: 8rbm
Q-score: 0.473
Nat Chem Biol (2024) [ DOI: doi:10.1038/s41589-024-01641-1 Pubmed: 38890433 ]
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Flavin mononucleotide (456 Da, Ligand from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit a (19 kDa, Protein from Azotobacter vinelandii DJ)
- Iron/sulfur cluster (351 Da, Ligand)
- Heptameric complex nadh:ferredoxin oxidoreductase rnf1 (188 kDa, Complex from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit c (52 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit e (25 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit b (17 kDa, Protein from Azotobacter vinelandii DJ)
- Riboflavin (376 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit d (39 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit g (24 kDa, Protein from Azotobacter vinelandii DJ)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
Resolution: 3.32 Å
EM Method: Single-particle
Fitted PDBs: 8rbq
Q-score: 0.444
Nat Chem Biol (2024) [ DOI: doi:10.1038/s41589-024-01641-1 Pubmed: 38890433 ]
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Flavin mononucleotide (456 Da, Ligand from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit a (19 kDa, Protein from Azotobacter vinelandii DJ)
- Iron/sulfur cluster (351 Da, Ligand)
- Heptameric complex nadh:ferredoxin oxidoreductase rnf1 (188 kDa, Complex from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit c (52 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit e (25 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit b (17 kDa, Protein from Azotobacter vinelandii DJ)
- Riboflavin (376 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit d (39 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit g (24 kDa, Protein from Azotobacter vinelandii DJ)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Protein rnfh (9 kDa, Protein from Azotobacter vinelandii DJ)
Cryo-EM structure of the Arabidopsis thaliana photosystem I(PSI-LHCII-ST2)
Resolution: 2.79 Å
EM Method: Single-particle
Fitted PDBs: 8j6z
Q-score: 0.587
Wu J, Chen S, Wang C, Lin W, Huang C, Fan C, Han D, Lu D, Xu X, Sui S, Zhang L
Mol Plant (2023) 16 pp. 1937-1950 [ DOI: doi:10.1016/j.molp.2023.11.002 Pubmed: 37936349 ]
- Photosystem i subunit o (15 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit ii-2, chloroplastic (22 kDa, Protein from Arabidopsis thaliana)
- Phylloquinone (450 Da, Ligand)
- Photosystem i reaction center subunit vi-2, chloroplastic (15 kDa, Protein from Arabidopsis thaliana)
- Photosystem i p700 chlorophyll a apoprotein a1 (83 kDa, Protein from Arabidopsis thaliana)
- (1r,3r)-6-{(3e,5e,7e,9e,11e,13e,15e,17e)-18-[(1s,4r,6r)-4-hydroxy-2,2,6-trimethyl-7-oxabicyclo[4.1.0]hept-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaenylidene}-1,5,5-trimethylcyclohexane-1,3-diol (600 Da, Ligand)
- Chlorophyll a isomer (893 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Chlorophyll a-b binding protein 2, chloroplastic (28 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit ix (5 kDa, Protein from Arabidopsis thaliana)
- Chlorophyll b (907 Da, Ligand)
- Photosystem i reaction center subunit iv a, chloroplastic (14 kDa, Protein from Arabidopsis thaliana)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i chlorophyll a/b-binding protein 3-1, chloroplastic (29 kDa, Protein from Arabidopsis thaliana)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Beta-carotene (536 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit viii (4 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit v, chloroplastic (17 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit xi, chloroplastic (23 kDa, Protein from Arabidopsis thaliana)
- Photosystem i chlorophyll a/b-binding protein 2, chloroplastic (27 kDa, Protein from Arabidopsis thaliana)
- Chlorophyll a-b binding protein 2.1, chloroplastic (28 kDa, Protein from Arabidopsis thaliana)
- Chlorophyll a-b binding protein 4, chloroplastic (27 kDa, Protein from Arabidopsis thaliana)
- Photosystem i iron-sulfur center (9 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit iii, chloroplastic (24 kDa, Protein from Arabidopsis thaliana)
- Iron/sulfur cluster (351 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Photosystem i reaction center subunit psak, chloroplastic (13 kDa, Protein from Arabidopsis thaliana)
- (3s,5r,6s,3's,5'r,6's)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol (600 Da, Ligand)
- Photosystem i (Complex from Arabidopsis thaliana)
- Chlorophyll a-b binding protein 6, chloroplastic (26 kDa, Protein from Arabidopsis thaliana)
Coordinates of Cryo-EM structure of the Arabidopsis thaliana PSI in state 1 (PSI-ST1)
Resolution: 3.06 Å
EM Method: Single-particle
Fitted PDBs: 8j7a
Q-score: 0.549
Wu J, Chen S, Wang C, Lin W, Huang C, Fan C, Han D, Lu D, Xu X, Sui S, Zhang L
Mol Plant (2023) 16 pp. 1937-1950 [ DOI: doi:10.1016/j.molp.2023.11.002 Pubmed: 37936349 ]
- Photosystem i reaction center subunit ii-2, chloroplastic (22 kDa, Protein from Arabidopsis thaliana)
- Phylloquinone (450 Da, Ligand)
- Photosystem i reaction center subunit vi-2, chloroplastic (15 kDa, Protein from Arabidopsis thaliana)
- Photosystem i p700 chlorophyll a apoprotein a1 (83 kDa, Protein from Arabidopsis thaliana)
- Chlorophyll a isomer (893 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Photosystem i reaction center subunit ix (5 kDa, Protein from Arabidopsis thaliana)
- Chlorophyll b (907 Da, Ligand)
- Photosystem i reaction center subunit iv a, chloroplastic (14 kDa, Protein from Arabidopsis thaliana)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i chlorophyll a/b-binding protein 3-1, chloroplastic (29 kDa, Protein from Arabidopsis thaliana)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Beta-carotene (536 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit viii (4 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit v, chloroplastic (17 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit xi, chloroplastic (23 kDa, Protein from Arabidopsis thaliana)
- Cryo-em structure of the arabidopsis thaliana photosystem i(psi-lhcii-st2) (Complex from Arabidopsis thaliana)
- Photosystem i chlorophyll a/b-binding protein 2, chloroplastic (27 kDa, Protein from Arabidopsis thaliana)
- Chlorophyll a-b binding protein 4, chloroplastic (27 kDa, Protein from Arabidopsis thaliana)
- Photosystem i iron-sulfur center (9 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit iii, chloroplastic (24 kDa, Protein from Arabidopsis thaliana)
- Iron/sulfur cluster (351 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Photosystem i reaction center subunit psak, chloroplastic (13 kDa, Protein from Arabidopsis thaliana)
- (3s,5r,6s,3's,5'r,6's)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol (600 Da, Ligand)
- Chlorophyll a-b binding protein 6, chloroplastic (26 kDa, Protein from Arabidopsis thaliana)
Coordinates of Cryo-EM structure of the Arabidopsis thaliana PSI in state 2 (PSI-ST2)
Resolution: 3.22 Å
EM Method: Single-particle
Fitted PDBs: 8j7b
Q-score: 0.576
Wu J, Chen S, Wang C, Lin W, Huang C, Fan C, Han D, Lu D, Xu X, Sui S, Zhang L
Mol Plant (2023) 16 pp. 1937-1950 [ DOI: doi:10.1016/j.molp.2023.11.002 Pubmed: 37936349 ]
- Photosystem i reaction center subunit ii-2, chloroplastic (22 kDa, Protein from Arabidopsis thaliana)
- Phylloquinone (450 Da, Ligand)
- Photosystem i reaction center subunit vi-2, chloroplastic (15 kDa, Protein from Arabidopsis thaliana)
- Photosystem i p700 chlorophyll a apoprotein a1 (83 kDa, Protein from Arabidopsis thaliana)
- Chlorophyll a isomer (893 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Photosystem i reaction center subunit ix (5 kDa, Protein from Arabidopsis thaliana)
- Chlorophyll b (907 Da, Ligand)
- Photosystem i reaction center subunit iv a, chloroplastic (14 kDa, Protein from Arabidopsis thaliana)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i chlorophyll a/b-binding protein 3-1, chloroplastic (29 kDa, Protein from Arabidopsis thaliana)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Beta-carotene (536 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit viii (4 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit v, chloroplastic (17 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit xi, chloroplastic (23 kDa, Protein from Arabidopsis thaliana)
- Cryo-em structure of the arabidopsis thaliana photosystem i(psi-lhcii-st2) (Complex from Arabidopsis thaliana)
- Photosystem i chlorophyll a/b-binding protein 2, chloroplastic (27 kDa, Protein from Arabidopsis thaliana)
- Chlorophyll a-b binding protein 4, chloroplastic (27 kDa, Protein from Arabidopsis thaliana)
- Photosystem i iron-sulfur center (9 kDa, Protein from Arabidopsis thaliana)
- Photosystem i reaction center subunit iii, chloroplastic (24 kDa, Protein from Arabidopsis thaliana)
- Iron/sulfur cluster (351 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Photosystem i reaction center subunit psak, chloroplastic (13 kDa, Protein from Arabidopsis thaliana)
- (3s,5r,6s,3's,5'r,6's)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol (600 Da, Ligand)
- Chlorophyll a-b binding protein 6, chloroplastic (26 kDa, Protein from Arabidopsis thaliana)
Resolution: 3.11 Å
EM Method: Single-particle
Fitted PDBs: 8ahx
Q-score: 0.513
Nat Chem Biol (2024) [ DOI: doi:10.1038/s41589-024-01641-1 Pubmed: 38890433 ]
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit a (19 kDa, Protein from Azotobacter vinelandii DJ)
- Flavin mononucleotide (456 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit c (52 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit b (17 kDa, Protein from Azotobacter vinelandii DJ)
- Heptameric complex of nadh:ferredoxin oxidoreductase rnf (188 kDa, Complex from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit e (25 kDa, Protein from Azotobacter vinelandii DJ)
- Riboflavin (376 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit d (39 kDa, Protein from Azotobacter vinelandii DJ)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Protein rnfh (9 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit g (25 kDa, Protein from Azotobacter vinelandii DJ)
Active state CI from Q10-NADH dataset, Subclass 2
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7w0y
Q-score: 0.523
Gu J, Liu T, Guo R, Zhang L, Yang M
Nat Struct Mol Biol (2022) 29 pp. 172-182 [ DOI: doi:10.1038/s41594-022-00722-w Pubmed: 35145322 ]
- Nadh dehydrogenase ubiquinone 1 alpha subcomplex subunit 9, mitochondrial (38 kDa, Protein from pig)
- Complex i-49kd (49 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4 (14 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9 (21 kDa, Protein from pig)
- Complex i-30kd (24 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial (17 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5 (12 kDa, Protein from pig)
- Cardiolipin (1 kDa, Ligand)
- S-[2-({n-[(2r)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate (540 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6 (13 kDa, Protein from pig)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Respiratory complex i (Complex from Sus scrofa)
- (9r,11s)-9-({[(1s)-1-hydroxyhexadecyl]oxy}methyl)-2,2-dimethyl-5,7,10-trioxa-2lambda~5~-aza-6lambda~5~-phosphaoctacosane-6,6,11-triol (767 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial (12 kDa, Protein from pig)
- Complex i-b14.5a (12 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial (10 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1 (8 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial (23 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial (20 kDa, Protein from pig)
- Complex i-b18 (15 kDa, Protein from pig)
- Zinc ion (65 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial (14 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 subunit c1, mitochondrial (5 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 (9 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, mitochondrial (8 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 (19 kDa, Protein from pig)
- Complex i-b16.6 (16 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10 (20 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3 (9 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 5 (68 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 4 (51 kDa, Protein from pig)
- Complex i-9kd (5 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial (18 kDa, Protein from pig)
- 1,4-dihydronicotinamide adenine dinucleotide (665 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Nadh-ubiquinone oxidoreductase 75 kda subunit, mitochondrial (75 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 1 (35 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 6 (19 kDa, Protein from pig)
- Iron/sulfur cluster (351 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11 (14 kDa, Protein from pig)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1 (6 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 3 (12 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 subunit c2 (14 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 4l (10 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 (17 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3 (9 kDa, Protein from pig)
- Complex i-b17 (15 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 5 (12 kDa, Protein from pig)
- Acyl carrier protein (10 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 2 (39 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (47 kDa, Protein from pig)
- Flavin mononucleotide (456 Da, Ligand)
- Coenzyme q10, (2z,6e,10z,14e,18e,22e,26z)-isomer (863 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial (36 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial (16 kDa, Protein from pig)
Deactive state CI from Rotenone-NADH dataset, Subclass 2
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7w2l
Q-score: 0.57
Gu J, Liu T, Guo R, Zhang L, Yang M
Nat Struct Mol Biol (2022) 29 pp. 172-182 [ DOI: doi:10.1038/s41594-022-00722-w Pubmed: 35145322 ]
- Complex i-49kd (49 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4 (14 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9 (21 kDa, Protein from pig)
- Complex i-30kd (24 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial (17 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (47 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 5 (68 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7 (15 kDa, Protein from pig)
- Cardiolipin (1 kDa, Ligand)
- Nadh dehydrogenase ubiquinone 1 alpha subcomplex subunit 9, mitochondrial (38 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6 (13 kDa, Protein from pig)
- S-[2-({n-[(2r)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate (540 Da, Ligand)
- Complex i-aggg (8 kDa, Protein from pig)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Respiratory complex i (Complex from Sus scrofa)
- (9r,11s)-9-({[(1s)-1-hydroxyhexadecyl]oxy}methyl)-2,2-dimethyl-5,7,10-trioxa-2lambda~5~-aza-6lambda~5~-phosphaoctacosane-6,6,11-triol (767 Da, Ligand)
- Complex i-b14.5a (12 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial (10 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1 (8 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial (23 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial (20 kDa, Protein from pig)
- Zinc ion (65 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial (14 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 (9 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 (19 kDa, Protein from pig)
- Complex i-b16.6 (16 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial (12 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10 (20 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 4 (51 kDa, Protein from pig)
- Complex i subunit b13 (12 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial (18 kDa, Protein from pig)
- 1,4-dihydronicotinamide adenine dinucleotide (665 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Nadh-ubiquinone oxidoreductase 75 kda subunit, mitochondrial (75 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 1 (35 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 6 (19 kDa, Protein from pig)
- Iron/sulfur cluster (351 Da, Ligand)
- Complex i-kfyi (4 kDa, Protein from pig)
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11 (14 kDa, Protein from pig)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Complex i-sgdh (16 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1 (6 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 subunit c2 (14 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 4l (10 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 (17 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3 (9 kDa, Protein from pig)
- Complex i-b17 (15 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 5 (12 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 3 (12 kDa, Protein from pig)
- Acyl carrier protein (10 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 2 (39 kDa, Protein from pig)
- Flavin mononucleotide (456 Da, Ligand)
- Coenzyme q10, (2z,6e,10z,14e,18e,22e,26z)-isomer (863 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial (36 kDa, Protein from pig)
- Complex i-9kd (5 kDa, Protein from pig)
- Complex i-b12 (9 kDa, Protein from pig)
Active state CI from DQ-NADH dataset, Subclass 1
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7w2r
Q-score: 0.597
Gu J, Liu T, Guo R, Zhang L, Yang M
Nat Struct Mol Biol (2022) 29 pp. 172-182 [ DOI: doi:10.1038/s41594-022-00722-w Pubmed: 35145322 ]
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 (17 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 (19 kDa, Protein from pig)
- Flavin mononucleotide (456 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 (9 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1 (6 kDa, Protein from pig)
- Cardiolipin (1 kDa, Ligand)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 5 (12 kDa, Protein from pig)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Complex i-b14.5a (12 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 6 (19 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial (36 kDa, Protein from pig)
- Complex i-b17 (15 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 2 (39 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3 (9 kDa, Protein from pig)
- 1,4-dihydronicotinamide adenine dinucleotide (665 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial (16 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 4 (51 kDa, Protein from pig)
- S-[2-({n-[(2r)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate (540 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Complex i-b16.6 (16 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, mitochondrial (8 kDa, Protein from pig)
- 2-decyl-5,6-dimethoxy-3-methylcyclohexa-2,5-diene-1,4-dione (322 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial (23 kDa, Protein from pig)
- Complex i-30kd (24 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase 75 kda subunit, mitochondrial (75 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 3 (12 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10 (20 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4 (14 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7 (15 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial (12 kDa, Protein from Pig)
- Iron/sulfur cluster (351 Da, Ligand)
- (9r,11s)-9-({[(1s)-1-hydroxyhexadecyl]oxy}methyl)-2,2-dimethyl-5,7,10-trioxa-2lambda~5~-aza-6lambda~5~-phosphaoctacosane-6,6,11-triol (767 Da, Ligand)
- Coenzyme q10, (2z,6e,10z,14e,18e,22e,26z)-isomer (863 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (47 kDa, Protein from pig)
- Acyl carrier protein (10 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial (14 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial (18 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 subunit c1, mitochondrial (5 kDa, Protein from pig)
- Respiratory complex i (Complex from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Nadh dehydrogenase ubiquinone 1 alpha subcomplex subunit 9, mitochondrial (38 kDa, Protein from pig)
- Complex i subunit b13 (12 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3 (9 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11 (14 kDa, Protein from pig)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Nadh-ubiquinone oxidoreductase chain 4l (10 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6 (13 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial (17 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 5 (68 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 subunit c2 (14 kDa, Protein from pig)
- Complex i-9kd (5 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9 (21 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial (20 kDa, Protein from pig)
- Nadh-ubiquinone oxidoreductase chain 1 (35 kDa, Protein from pig)
- Complex i-49kd (49 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1 (8 kDa, Protein from pig)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial (10 kDa, Protein from pig)