Resolution: 2.67 Å
EM Method: Single-particle
Fitted PDBs: 7e1w
Q-score: 0.569
Zhou S, Wang W, Zhou X, Zhang Y, Lai Y, Tang Y, Xu J, Li D, Lin J, Yang X, Ran T, Chen H, Guddat LW, Wang Q, Gao Y, Rao Z, Gong H
eLife (2021) 10 [ DOI: doi:10.7554/eLife.69418 Pubmed: 34819223 ]
- Cardiolipin (1 kDa, Ligand)
- Menaquinone-9 (785 Da, Ligand)
- Cytochrome bc1 complex cytochrome b subunit (61 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- 6-chloranyl-2-ethyl-n-[[4-[4-[4-(trifluoromethyloxy)phenyl]piperidin-1-yl]phenyl]methyl]imidazo[1,2-a]pyridine-3-carboxamide (557 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 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)
- Cytochrome c oxidase subunit 3 (22 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Cytochrome bc1 complex cytochrome c subunit (29 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- (2r)-3-(((2-aminoethoxy)(hydroxy)phosphoryl)oxy)-2-(palmitoyloxy)propyl (e)-octadec-9-enoate (717 Da, Ligand)
- Cytochrome c oxidase subunit 1 (64 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- Uncharacterized protein msmeg_4692/msmei_4575 (15 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Hybrid respiratory supercomplex consisting of mycobacterium tuberculosis complexiii and mycobacterium smegmatis complexiv in the presence of q203 (800 kDa, Complex from Mycolicibacterium smegmatis MC2 51)
- Palmitic acid (256 Da, Ligand)
- Cytochrome c oxidase polypeptide 4 (15 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Cytochrome c oxidase subunit ctaj (8 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Heme-a (852 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Prokaryotic respiratory supercomplex associate factor 1 prsaf1 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- Heme c (618 Da, Ligand)
- Water (18 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome bc1 complex rieske iron-sulfur subunit (46 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Cytochrome c oxidase subunit 2 (38 kDa, Protein from Mycobacterium smegmatis MC2 51)
Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 7e1x
Q-score: 0.513
Zhou S, Wang W, Zhou X, Zhang Y, Lai Y, Tang Y, Xu J, Li D, Lin J, Yang X, Ran T, Chen H, Guddat LW, Wang Q, Gao Y, Rao Z, Gong H
eLife (2021) 10 [ DOI: doi:10.7554/eLife.69418 Pubmed: 34819223 ]
- Mycobacterium smegmatis (Complex from Mycolicibacterium smegmatis MC2 155)
- Cardiolipin (1 kDa, Ligand)
- Menaquinone-9 (785 Da, Ligand)
- Cytochrome bc1 complex cytochrome b subunit (61 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Fe2/s2 (inorganic) cluster (175 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)
- Cytochrome c oxidase subunit 3 (22 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Cytochrome bc1 complex cytochrome c subunit (29 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- (2r)-3-(((2-aminoethoxy)(hydroxy)phosphoryl)oxy)-2-(palmitoyloxy)propyl (e)-octadec-9-enoate (717 Da, Ligand)
- Cytochrome c oxidase subunit 1 (64 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- Uncharacterized protein msmeg_4692/msmei_4575 (15 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Palmitic acid (256 Da, Ligand)
- Cytochrome c oxidase polypeptide 4 (15 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Hybrid respiratory supercomplex consisting of mycobacterium tuberculosis complexiii and mycobacterium smegmatis complexiv in presence of tb47 (800 kDa, Complex from Mycolicibacterium smegmatis MC2 51)
- Cytochrome c oxidase subunit ctaj (8 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Heme-a (852 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Prokaryotic respiratory supercomplex associate factor 1 prsaf1 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- Heme c (618 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome bc1 complex rieske iron-sulfur subunit (46 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- 5-methoxy-2-methyl-~{n}-[[4-[4-[4-(trifluoromethyloxy)phenyl]piperidin-1-yl]phenyl]methyl]pyrazolo[1,5-a]pyridine-3-carboxamide (538 Da, Ligand)
- Cytochrome c oxidase subunit 2 (38 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Mycobacterium tuberculosis complexiii (Complex)
Resolution: 2.68 Å
EM Method: Single-particle
Fitted PDBs: 7e1v
Q-score: 0.614
Zhou S, Wang W, Zhou X, Zhang Y, Lai Y, Tang Y, Xu J, Li D, Lin J, Yang X, Ran T, Chen H, Guddat LW, Wang Q, Gao Y, Rao Z, Gong H
eLife (2021) 10 [ DOI: doi:10.7554/eLife.69418 Pubmed: 34819223 ]
- Cardiolipin (1 kDa, Ligand)
- Menaquinone-9 (785 Da, Ligand)
- Cytochrome bc1 complex cytochrome b subunit (61 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Fe2/s2 (inorganic) cluster (175 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)
- Cytochrome c oxidase subunit 3 (22 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Mycobacterium tuberculosis complexiii (Complex from Mycobacterium tuberculosis H37Rv)
- Cytochrome bc1 complex cytochrome c subunit (29 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- (2r)-3-(((2-aminoethoxy)(hydroxy)phosphoryl)oxy)-2-(palmitoyloxy)propyl (e)-octadec-9-enoate (717 Da, Ligand)
- Cytochrome c oxidase subunit 1 (64 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- Uncharacterized protein msmeg_4692/msmei_4575 (15 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Palmitic acid (256 Da, Ligand)
- Cytochrome c oxidase polypeptide 4 (15 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Cytochrome c oxidase subunit ctaj (8 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Heme-a (852 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Prokaryotic respiratory supercomplex associate factor 1 prsaf1 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- Heme c (618 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome bc1 complex rieske iron-sulfur subunit (46 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Cytochrome c oxidase subunit 2 (38 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Mycobacterium smegmatis complexiv (Complex)
- Apo hybrid respiratory supercomplex consisting of mycobacterium tuberculosis complexiii and mycobacterium smegmatis complexiv (800 kDa, Complex from Mycolicibacterium smegmatis MC2 51)
Structure of Mycobacterium smegmatis bd complex in the apo-form.
Resolution: 2.79 Å
EM Method: Single-particle
Fitted PDBs: 7d5i
Q-score: 0.597
Wang W, Gao Y, Tang Y, Zhou X, Lai Y, Zhou S, Zhang Y, Yang X, Liu F, Guddat LW, Wang Q, Rao Z, Gong H
Nat Commun (2021) 12 pp. 4621-4621 [ DOI: doi:10.1038/s41467-021-24924-w Pubmed: 34330928 ]
- Integral membrane cytochrome d ubiquinol oxidase (subunit ii) cydb (39 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Cytochrome d ubiquinol oxidase subunit 1 (53 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Heme b/c (618 Da, Ligand)
- Cis-heme d hydroxychlorin gamma-spirolactone (632 Da, Ligand)
- Cryo-em structure of mycobacterium smegmatis bd complex (Complex from Mycolicibacterium smegmatis MC2 155)
Cryo-EM structure of the encapsulin shell from Mycobacterium smegmatis
Cryo-EM structure of the encapsulated DyP-type peroxidase from Mycobacterium smegmatis
Mycobacterium smegmatis SugABC complex
Resolution: 3.41 Å
EM Method: Single-particle
Fitted PDBs: 7cad
Q-score: 0.505
Liu F, Liang J, Zhang B, Gao Y, Yang X, Hu T, Yang H, Xu W, Guddat LW, Rao Z
Sci Adv (2020) 6 [ DOI: doi:10.1126/sciadv.abb9833 Pubmed: 33127676 ]
- Abc transporter, atp-binding protein sugc (43 kDa, Protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Mycobacterium smegmatis sugabc complex (Complex from Mycolicibacterium smegmatis MC2 155)
- Abc transporter, permease protein sugb (29 kDa, Protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Abc sugar transporter, permease component (32 kDa, Protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Mycobacterium smegmatis LpqY-SugABC complex in the resting state
Resolution: 3.44 Å
EM Method: Single-particle
Fitted PDBs: 7cae
Q-score: 0.491
Liu F, Liang J, Zhang B, Gao Y, Yang X, Hu T, Yang H, Xu W, Guddat LW, Rao Z
Sci Adv (2020) 6 [ DOI: doi:10.1126/sciadv.abb9833 Pubmed: 33127676 ]
- Mycobacterium smegmatis lpqy-sugabc complex in the resting state. (Complex from Mycolicibacterium smegmatis MC2 155)
- Abc sugar transporter, permease component (32 kDa, Protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Abc transporter, permease protein sugb (29 kDa, Protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Bacterial extracellular solute-binding protein (50 kDa, Protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Abc transporter, atp-binding protein sugc (43 kDa, Protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Mycobacterium smegmatis LpqY-SugABC complex in the pre-translocation state
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7caf
Q-score: 0.498
Liu F, Liang J, Zhang B, Gao Y, Yang X, Hu T, Yang H, Xu W, Guddat LW, Rao Z
Sci Adv (2020) 6 [ DOI: doi:10.1126/sciadv.abb9833 Pubmed: 33127676 ]
- Abc sugar transporter, permease component (32 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Mycobacterium smegmatis lpqy-sugabc complex in the pre-translocation state (Complex from Mycolicibacterium smegmatis MC2 155)
- Abc transporter, atp-binding protein sugc (43 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Abc transporter, permease protein sugb (29 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Bacterial extracellular solute-binding protein (50 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Mycobacterium smegmatis LpqY-SugABC complex in the catalytic intermediate state
Resolution: 3.78 Å
EM Method: Single-particle
Fitted PDBs: 7cag
Q-score: 0.453
Liu F, Liang J, Zhang B, Gao Y, Yang X, Hu T, Yang H, Xu W, Guddat LW, Rao Z
Sci Adv (2020) 6 [ DOI: doi:10.1126/sciadv.abb9833 Pubmed: 33127676 ]
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Abc sugar transporter, permease component (32 kDa, Protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Abc transporter, permease protein sugb (29 kDa, Protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Mycobacterium smegmatis lpqy-sugabc complex in the catalytic intermediate state (Complex from Mycolicibacterium smegmatis MC2 155)
- Bacterial extracellular solute-binding protein (50 kDa, Protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Abc transporter, atp-binding protein sugc (43 kDa, Protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))