Cryo-EM structure of the Mycobacterium smegmatis DNA integrity scanning protein (MsDisA).
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7y0d
Q-score: 0.347
Gautam S, Mahapa A, Yeramala L, Gandhi A, Krishnan S, Vinothkumar KR, Chatterji D
Protein Sci (2023) 32 pp. e4568-e4568 [ Pubmed: 36660887 DOI: doi:10.1002/pro.4568 ]
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 a functional obligate respiratory supercomplex from Mycobacterium smegmatis
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 6hwh
Q-score: 0.5
Wiseman B, Nitharwal RG, Fedotovskaya O, Schafer J, Guo H, Kuang Q, Benlekbir S, Sjostrand D, Adelroth P, Rubinstein JL, Brzezinski P, Hogbom M
Nat Struct Mol Biol (2018) 25 pp. 1128-1136 [ Pubmed: 30518849 DOI: doi:10.1038/s41594-018-0160-3 ]
- Copper (ii) ion (63 Da, Ligand)
- Co-purified unknown peptide built as polyala (1 kDa, Protein from Mycobacterium smegmatis MC2 155)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Co-purified unknown peptide built as polyala (2 kDa, Protein from Mycobacterium smegmatis MC2 155)
- Ubiquinol-cytochrome c reductase iron-sulfur subunit (44 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Cytochrome c oxidase polypeptide 4 (15 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Co-purified unknown transmembrane helices built as polyala (5 kDa, Protein from Mycobacterium smegmatis MC2 155)
- Heme-as (920 Da, Ligand)
- Cytochrome bc1 complex cytochrome c subunit (27 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Ubiquinol-cytochrome c reductase qcrb (61 kDa, Protein from Mycobacterium smegmatis MC2 155)
- Respiratory supercomplex from mycobacterium smegmatis (770 kDa, Complex from Mycobacterium smegmatis str. MC2 155)
- Menaquinone-9 (785 Da, Ligand)
- Co-purified unknown transmembrane helices built as polyala (6 kDa, Protein from Mycobacterium smegmatis MC2 155)
- Cytochrome c oxidase subunit 3 (22 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Cardiolipin (1 kDa, Ligand)
- Heme c (618 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Cytochrome c oxidase subunit 1 (64 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Uncharacterized protein msmeg_4692/msmei_4575 (15 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Cytochrome c oxidase subunit 2 (38 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Msmeg_4693 (8 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))