Structure of Fanconi anaemia core complex (consensus map)
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 6sri
Q-score: 0.112
Shakeel S, Rajendra E, Alcon P, O'Reilly F, Chorev DS, Maslen S, Degliesposti G, Russo CJ, He S, Hill CH, Skehel JM, Scheres SHW, Patel KJ, Rappsilber J, Robinson CV, Passmore LA
Nature (2019) 575 pp. 234-237 [ DOI: doi:10.1038/s41586-019-1703-4 Pubmed: 31666700 ]
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed faap100) (3 kDa, Protein from Gallus gallus)
- Fanconi anaemia protein fancl (42 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed fancb) (10 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (2 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (783 Da, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed faap100) (23 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (3 kDa, Protein from Gallus gallus)
- Base region, proposed fancf (17 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed fancb) (23 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (6 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (top region, proposed fancg) (24 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (5 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100: chain f,f; base region, proposed fancc-fanc-e-fancf: chain z) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Fanconi anaemia core complex (860 kDa, Complex from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (2 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (2 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (7 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100: chain a,a; base region, proposed fancc-fanc-e-fancf: chain 3) (6 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (2 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (9 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (top region, proposed fancg) (12 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (19 kDa, Protein from Gallus gallus)
Structure of the Fanconi anaemia core subcomplex
Resolution: 4.6 Å
EM Method: Single-particle
Fitted PDBs: 6srs
Q-score: 0.135
Shakeel S, Rajendra E, Alcon P, O'Reilly F, Chorev DS, Maslen S, Degliesposti G, Russo CJ, He S, Hill CH, Skehel JM, Scheres SHW, Patel KJ, Rappsilber J, Robinson CV, Passmore LA
Nature (2019) 575 pp. 234-237 [ DOI: doi:10.1038/s41586-019-1703-4 Pubmed: 31666700 ]
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed faap100) (3 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed fancb) (10 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (2 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (783 Da, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed faap100) (23 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (3 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed fancb) (23 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed fancg) (12 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Fanconi anaemia protein fancl (10 kDa, Protein from Gallus gallus)
- Fanconi anaemia core subcomplex (860 kDa, Complex from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (2 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (2 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (6 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed fancg) (24 kDa, Protein from Gallus gallus)
Structure of the ESX-3 core complex
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 6sgw
Q-score: 0.427
Famelis N, Rivera-Calzada A, Degliesposti G, Wingender M, Mietrach N, Skehel JM, Fernandez-Leiro R, Bottcher B, Schlosser A, Llorca O, Geibel S
Nature (2019) 576 pp. 321-325 [ DOI: doi:10.1038/s41586-019-1633-1 Pubmed: 31597161 ]
- Esx-3 secretion system protein ecce3 (30 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Esx-3 secretion system atpase eccb3 (9 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Esx-3 secretion system protein eccd3 (47 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Esx-3 secretion system protein eccc3 (44 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Esx-3 core complex (650 kDa, Complex from Mycolicibacterium smegmatis MC2 155)
Structure of protomer 1 of the ESX-3 core complex
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6sgx
Q-score: 0.478
Famelis N, Rivera-Calzada A, Degliesposti G, Wingender M, Mietrach N, Skehel JM, Fernandez-Leiro R, Bottcher B, Schlosser A, Llorca O, Geibel S
Nature (2019) 576 pp. 321-325 [ DOI: doi:10.1038/s41586-019-1633-1 Pubmed: 31597161 ]
- Esx-3 secretion system protein ecce3 (30 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Esx-3 secretion system protein eccd3 (47 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Protomer1 of the esx-3 core complex (650 kDa, Complex from Mycolicibacterium smegmatis MC2 155)
- Esx-3 secretion system protein eccc3 (44 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Esx-3 secretion system eccb3 (8 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
ESX-3 core complex centred at the cytoplasmic region, conformation 1.
Famelis N, Rivera-Calzada A, Degliesposti G, Wingender M, Mietrach N, Skehel JM, Fernandez-Leiro R, Bottcher B, Schlosser A, Llorca O, Geibel S
Nature (2019) 576 pp. 321-325 [ DOI: doi:10.1038/s41586-019-1633-1 Pubmed: 31597161 ]
- Ecce3 (Protein from Mycolicibacterium smegmatis MC2 155)
- Esx-3 core complex, conformation 1 (650 kDa, Complex from Mycolicibacterium smegmatis MC2 155)
- Eccc3 (Protein from Mycolicibacterium smegmatis MC2 155)
- Eccd3 (Protein from Mycolicibacterium smegmatis MC2 155)
- Eccb3 (Protein from Mycolicibacterium smegmatis MC2 155)
ESX-3 core complex centred at the cytoplasmic region, conformation 2.
Famelis N, Rivera-Calzada A, Degliesposti G, Wingender M, Mietrach N, Skehel JM, Fernandez-Leiro R, Bottcher B, Schlosser A, Llorca O, Geibel S
Nature (2019) 576 pp. 321-325 [ DOI: doi:10.1038/s41586-019-1633-1 Pubmed: 31597161 ]
- Esx-3 core complex, conformation 2 (650 kDa, Complex from Mycolicibacterium smegmatis MC2 155)
- Ecce3 (Protein from Mycolicibacterium smegmatis MC2 155)
- Eccc3 (Protein from Mycolicibacterium smegmatis MC2 155)
- Eccd3 (Protein from Mycolicibacterium smegmatis MC2 155)
- Eccb3 (Protein from Mycolicibacterium smegmatis MC2 155)
Structure of protomer 2 of the ESX-3 core complex
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6sgz
Q-score: 0.42
Famelis N, Rivera-Calzada A, Degliesposti G, Wingender M, Mietrach N, Skehel JM, Fernandez-Leiro R, Bottcher B, Schlosser A, Llorca O, Geibel S
Nature (2019) 576 pp. 321-325 [ DOI: doi:10.1038/s41586-019-1633-1 Pubmed: 31597161 ]
- Esx-3 secretion system protein eccd3 (Complex from Mycolicibacterium smegmatis MC2 155)
- Esx-3 secretion system protein eccc3 (Complex from Mycolicibacterium smegmatis MC2 155)
- Esx-3 secretion system atpase eccb3 (6 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Esx-3 secretion system protein ecce3 (30 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Esx-3 secretion system protein eccb3 (Complex from Mycolicibacterium smegmatis MC2 155)
- Protomer2 of the esx-3 core complex (650 kDa, Complex)
- Esx-3 secretion system protein eccd3 (47 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Esx-3 secretion system protein eccc3 (38 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
CI Membrane Arm focused refinement from Ovine respiratory SC I+III2
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6q9b
Q-score: 0.403
Letts JA, Fiedorczuk K, Degliesposti G, Skehel M, Sazanov LA
Mol Cell (2019) 75 pp. 1131-1146.e6 [ Pubmed: 31492636 DOI: doi:10.1016/j.molcel.2019.07.022 ]
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13 (16 kDa, Protein from Ovis aries)
- Cardiolipin (1 kDa, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11 (14 kDa, Protein from Ovis aries)
- Nadh-ubiquinone oxidoreductase chain 2 (39 kDa, Protein from Ovis aries)
- Ovine mitochondrial sc i+iii2 (1 MDa, Complex from Ovis aries)
- Nadh-ubiquinone oxidoreductase chain 1 (35 kDa, Protein from Ovis aries)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Acyl carrier protein (10 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] 1 subunit c1, mitochondrial (5 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase subunit b7 (16 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase core subunit s2,nadh:ubiquinone oxidoreductase core subunit s2 (49 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase subunit b2 (8 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] 1 subunit c2 (14 kDa, Protein from Ovis aries)
- Nadh-ubiquinone oxidoreductase chain 4l (10 kDa, Protein from Ovis aries)
- Nadh-ubiquinone oxidoreductase chain 5 (68 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial (14 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase subunit a3 (9 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 (20 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase subunit b3 (11 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase subunit b10 (20 kDa, Protein from Ovis aries)
- Nadh-ubiquinone oxidoreductase chain 6 (19 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial (36 kDa, Protein from Ovis aries)
- Nadh-ubiquinone oxidoreductase chain 4 (52 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase subunit b4 (14 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase subunit b9 (21 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase subunit s5 (12 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1 (6 kDa, Protein from Ovis aries)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nadh-ubiquinone oxidoreductase chain 3 (13 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1 (8 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase subunit b5 (16 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial (18 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6 (15 kDa, Protein from Ovis aries)
- S-[2-({n-[(2s)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] tetradecanethioate (568 Da, Ligand)
CI Peripheral Arm focused refinement from Ovine respiratory SC I+III2
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 6q9d
Q-score: 0.424
Letts JA, Fiedorczuk K, Degliesposti G, Skehel M, Sazanov LA
Mol Cell (2019) 75 pp. 1131-1146.e6 [ Pubmed: 31492636 DOI: doi:10.1016/j.molcel.2019.07.022 ]
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13 (16 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial (10 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase subunit a6 (14 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (48 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase core subunit s7 (20 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7 (12 kDa, Protein from Ovis aries)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Flavin mononucleotide (456 Da, Ligand)
- Ovine mitochondrial sc i+iii2 (1 MDa, Complex from Ovis aries)
- Nadh:ubiquinone oxidoreductase core subunit s3 (26 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial (23 kDa, Protein from Ovis aries)
- Acyl carrier protein (10 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase core subunit s2,nadh:ubiquinone oxidoreductase core subunit s2 (49 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase subunit s4 (15 kDa, Protein from Ovis aries)
- Zinc ion (65 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 (10 kDa, Protein from Ovis aries)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Nadh:ubiquinone oxidoreductase core subunit s1 (77 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase core subunit s8 (20 kDa, Protein from Ovis aries)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5 (13 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase subunit v3 (8 kDa, Protein from Ovis aries)
- Iron/sulfur cluster (351 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 (17 kDa, Protein from Ovis aries)
- Nadh:ubiquinone oxidoreductase subunit a9 (38 kDa, Protein from Ovis aries)
- S-[2-({n-[(2s)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] tetradecanethioate (568 Da, Ligand)
Complex III2 focused refinement from Ovine respiratory supercomplex I+III2
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6q9e
Q-score: 0.413
Letts JA, Fiedorczuk K, Degliesposti G, Skehel M, Sazanov LA
Mol Cell (2019) 75 pp. 1131-1146.e6 [ Pubmed: 31492636 DOI: doi:10.1016/j.molcel.2019.07.022 ]
- Ubiquinone-10 (863 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Cytochrome b-c1 complex subunit 6 (9 kDa, Protein from Ovis aries)
- Cardiolipin (1 kDa, Ligand)
- Ubiquinol-cytochrome c reductase, complex iii subunit x (7 kDa, Protein from Ovis aries)
- Cytochrome b-c1 complex subunit rieske, mitochondrial (2 kDa, Protein from Ovis aries)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Cytochrome b (42 kDa, Protein from Ovis aries)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Cytochrome c1 (27 kDa, Protein from Ovis aries)
- Heme c (618 Da, Ligand)
- Cytochrome b-c1 complex subunit rieske, mitochondrial (21 kDa, Protein from Ovis aries)
- Cytochrome b-c1 complex subunit 7 (13 kDa, Protein from Ovis aries)
- Ubiquinol-cytochrome c reductase core protein 1 (49 kDa, Protein from Ovis aries)
- Ubiquinol-cytochrome c reductase core protein 2 (46 kDa, Protein from Ovis aries)
- Ovine mitochondrial sc i+iii2 (1 MDa, Complex from Ovis aries)
- Ubiquinol-cytochrome c reductase complex iii subunit vii (9 kDa, Protein from Ovis aries)