mycobacterial efflux pump, apo state
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8k1m
Q-score: 0.574
Wang Y, Gao S, Wu F, Gong Y, Mu N, Wei C, Wu C, Wang J, Yan N, Yang H, Zhang Y, Liu J, Wang Z, Yang X, Lam SM, Shui G, Li S, Da L, Guddat LW, Rao Z, Zhang L
PNAS (2024) 121 pp. e2403421121-e2403421121 [ DOI: doi:10.1073/pnas.2403421121 Pubmed: 39226350 ]
- (1s)-2-{[(s)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(octadecanoyloxy)methyl]ethyl (9z)-octadec-9-enoate (746 Da, Ligand)
- Ternary complex of an abc transporter rv1217c-1218c (120 kDa, Complex from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Multidrug efflux system atp-binding protein rv1218c (31 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Multidrug efflux system permease protein rv1217c (56 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Cardiolipin (1 kDa, Ligand)
mycobacterial efflux pump, substrate-bound state
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8k1n
Q-score: 0.541
Wang Y, Gao S, Wu F, Gong Y, Mu N, Wei C, Wu C, Wang J, Yan N, Yang H, Zhang Y, Liu J, Wang Z, Yang X, Lam SM, Shui G, Li S, Da L, Guddat LW, Rao Z, Zhang L
PNAS (2024) 121 pp. e2403421121-e2403421121 [ Pubmed: 39226350 DOI: doi:10.1073/pnas.2403421121 ]
- Cardiolipin (1 kDa, Ligand)
- Multidrug efflux system atp-binding protein rv1218c (33 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Multidrug efflux system permease protein rv1217c (56 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Rifampicin (822 Da, Ligand)
- Ternary complex of an abc transporter rv1217c-1218c (120 kDa, Complex from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
mycobacterial efflux pump, AMPPNP bound state
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8k1o
Q-score: 0.597
Wang Y, Gao S, Wu F, Gong Y, Mu N, Wei C, Wu C, Wang J, Yan N, Yang H, Zhang Y, Liu J, Wang Z, Yang X, Lam SM, Shui G, Li S, Da L, Guddat LW, Rao Z, Zhang L
PNAS (2024) 121 pp. e2403421121-e2403421121 [ Pubmed: 39226350 DOI: doi:10.1073/pnas.2403421121 ]
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Magnesium ion (24 Da, Ligand)
- Multidrug efflux system atp-binding protein rv1218c (33 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Multidrug efflux system permease protein rv1217c (56 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Ternary complex of an abc transporter rv1217c-1218c (120 kDa, Complex from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Mycobacterium smegmatis Sdh1 in complex with UQ1
Resolution: 2.53 Å
EM Method: Single-particle
Fitted PDBs: 7d6v
Q-score: 0.636
Zhou X, Gao Y, Wang W, Yang X, Yang X, Liu F, Tang Y, Lam SM, Shui G, Yu L, Tian C, Guddat LW, Wang Q, Rao Z, Gong H
PNAS (2021) 118 [ Pubmed: 33876763 DOI: doi:10.1073/pnas.2022308118 ]
- Succinate dehydrogenase subunit a (70 kDa, Protein from Mycolicibacterium smegmatis)
- Iron/sulfur cluster (351 Da, Ligand)
- Fe3-s4 cluster (295 Da, Ligand)
- (1s)-2-{[(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (720 Da, Ligand)
- Succinate dehydrogenase (membrane anchor subunit) (32 kDa, Protein from Mycolicibacterium smegmatis)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- Ubiquinone-1 (250 Da, Ligand)
- Mycobacterium smegmatis sdh1 in complex with uq1 (Complex from Mycolicibacterium smegmatis MC2 51)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Fumarate reductase iron-sulfur subunit (28 kDa, Protein from Mycolicibacterium smegmatis)
Mycobacterium smegmatis Sdh1 complex in the apo form
Resolution: 2.88 Å
EM Method: Single-particle
Fitted PDBs: 7d6x
Q-score: 0.587
Zhou X, Gao Y, Wang W, Yang X, Yang X, Liu F, Tang Y, Lam SM, Shui G, Yu L, Tian C, Guddat LW, Wang Q, Rao Z, Gong H
PNAS (2021) 118 [ Pubmed: 33876763 DOI: doi:10.1073/pnas.2022308118 ]
- Succinate dehydrogenase subunit a (70 kDa, Protein from Mycolicibacterium smegmatis)
- Iron/sulfur cluster (351 Da, Ligand)
- Mycobacterium smegmatis sdh1 complex in apo form (Complex from Mycolicibacterium smegmatis MC2 51)
- Fe3-s4 cluster (295 Da, Ligand)
- (1s)-2-{[(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (720 Da, Ligand)
- Succinate dehydrogenase (membrane anchor subunit) (32 kDa, Protein from Mycolicibacterium smegmatis)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Fumarate reductase iron-sulfur subunit (28 kDa, Protein from Mycolicibacterium smegmatis)
Structure of Mycobacterium smegmatis succinate dehydrogenase 2
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 6lum
Q-score: 0.561
Gong H, Gao Y, Zhou X, Xiao Y, Wang W, Tang Y, Zhou S, Zhang Y, Ji W, Yu L, Tian C, Lam SM, Shui G, Guddat LW, Wong LL, Wang Q, Rao Z
Nat Commun (2020) 11 pp. 4245-4245 [ Pubmed: 32843629 DOI: doi:10.1038/s41467-020-18011-9 ]
- Succinate dehydrogenase subunit d (19 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- Menaquinone-9 (785 Da, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphoinositol (836 Da, Ligand)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- Fe3-s4 cluster (295 Da, Ligand)
- Succinate dehydrogenase subunit c (15 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- Iron/sulfur cluster (351 Da, Ligand)
- 2-(hexadecanoyloxy)-1-[(phosphonooxy)methyl]ethyl hexadecanoate (648 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Mycobaterium smegmatis succinate dehydrogenase 2 (400 kDa, Complex from Mycolicibacterium smegmatis MC2 51)
- Succinate dehydrogenase subunit b (29 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- Succinate dehydrogenase subunit a (64 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Succinate dehydrogenase subunit f (3 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- (1s)-2-{[(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (720 Da, Ligand)
Respiratory Complex CIII2CIV2SOD2 from Mycobacterium smegmatis
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6adq
Q-score: 0.458
Gong H, Li J, Xu A, Tang Y, Ji W, Gao R, Wang S, Yu L, Tian C, Li J, Yen HY, Man Lam S, Shui G, Yang X, Sun Y, Li X, Jia M, Yang C, Jiang B, Lou Z, Robinson CV, Wong LL, Guddat LW, Sun F, Wang Q, Rao Z
Science (2018) 362 [ Pubmed: 30361386 DOI: doi:10.1126/science.aat8923 ]
- Cytochrome bc1 complex cytochrome c subunit (30 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Cytochrome c oxidase subunit 2 (38 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)
- Prokaryotic respiratory supercomplex associate factor 1 prsaf1 (11 kDa, Protein from Mycobacterium smegmatis MC2 51)
- (2s)-1-(hexadecanoyloxy)propan-2-yl (10s)-10-methyloctadecanoate (594 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Rieske iron-sulfur protein qcra (46 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Cytochrome c oxidase polypeptide 4 (15 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Ubiquinol-cytochrome c reductase cytochrome b subunit (60 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Uncharacterized protein msmeg_4692/msmei_4575 (15 kDa, Protein from Mycobacterium smegmatis MC2 51)
- (2r)-3-(((2-aminoethoxy)(hydroxy)phosphoryl)oxy)-2-(palmitoyloxy)propyl (e)-octadec-9-enoate (717 Da, Ligand)
- Menaquinone-9 (785 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Lpqe protein (19 kDa, Protein from Mycobacterium smegmatis MC2 51)
- (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)
- Superoxide dismutase in complex with bcc-aa3 type ciii-civ supercomplex from mycobacterium smegmatis (800 kDa, Complex from Mycobacterium smegmatis MC2 51)
- Heme c (618 Da, Ligand)
- Superoxide dismutase [cu-zn] (23 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Cytochrome c oxidase subunit 1 (64 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Cytochrome c oxidase subunit 3 (22 kDa, Protein from Mycobacterium smegmatis MC2 51)