Junin virus(JUNV) RNA polymerase L complexed with Z protein
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7eju
Q-score: 0.473
Kang H, Cong J, Wang C, Ji W, Xin Y, Qian Y, Li X, Chen Y, Rao Z
Nat Commun (2021) 12 pp. 4134-4134 [ Pubmed: 34226547 DOI: doi:10.1038/s41467-021-24458-1 ]
- Ring finger protein z (10 kDa, Protein from Junin mammarenavirus)
- Complex of l and z proteins of junin virus (junv) (250 kDa, Complex from Junin mammarenavirus)
- Rna-directed rna polymerase l (253 kDa, Protein from Junin mammarenavirus)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
COVID-19 RNA-dependent RNA polymerase post-translocated catalytic complex
Resolution: 3.26 Å
EM Method: Single-particle
Fitted PDBs: 7bzf
Q-score: 0.47
Wang Q, Wu J, Wang H, Gao Y, Liu Q, Mu A, Ji W, Yan L, Zhu Y, Zhu C, Fang X, Yang X, Huang Y, Gao H, Liu F, Ge J, Sun Q, Yang X, Xu W, Liu Z, Yang H, Lou Z, Jiang B, Guddat LW, Gong P, Rao Z
Cell (2020) 182 pp. 417-428.e13 [ DOI: doi:10.1016/j.cell.2020.05.034 Pubmed: 32526208 ]
- Structure of covid-19 rna-dependent rna polymerase in complex with rna (155 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Rna (5'-r(*up*gp*up*up*cp*gp*ap*cp*gp*ap*cp*ap*cp*a)-3') (4 kDa, RNA from Foot-and-mouth disease virus)
- Non-structural protein 8 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Rna (31-mer) (10 kDa, RNA from Foot-and-mouth disease virus)
- Non-structural protein 7 (9 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
- Rna-directed rna polymerase (108 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
COVID-19 RNA-dependent RNA polymerase pre-translocated catalytic complex
Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 7c2k
Q-score: 0.581
Wang Q, Wu J, Wang H, Gao Y, Liu Q, Mu A, Ji W, Yan L, Zhu Y, Zhu C, Fang X, Yang X, Huang Y, Gao H, Liu F, Ge J, Sun Q, Yang X, Xu W, Liu Z, Yang H, Lou Z, Jiang B, Guddat LW, Gong P, Rao Z
Cell (2020) 182 pp. 417-428.e13 [ Pubmed: 32526208 DOI: doi:10.1016/j.cell.2020.05.034 ]
- Non-structural protein 7 (9 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Rna (5'-r(*up*gp*up*up*cp*gp*ap*cp*gp*ap*cp*ap*cp*ap*gp*g*(f86)p*g)-3') (5 kDa, RNA from Foot-and-mouth disease virus)
- Covid-19 rna-dependent rna polymerase pre-translocated catalytic complex (Complex from Severe acute respiratory syndrome coronavirus 2)
- Rna (29-mer) (9 kDa, RNA from Foot-and-mouth disease virus)
- Rna-directed rna polymerase (108 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Non-structural protein 8 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
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 c (15 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- Menaquinone-9 (785 Da, Ligand)
- Mycobaterium smegmatis succinate dehydrogenase 2 (400 kDa, Complex from Mycolicibacterium smegmatis MC2 51)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- 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 subunit d (19 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Succinate dehydrogenase subunit f (3 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- Succinate dehydrogenase subunit a (64 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
- 2-(hexadecanoyloxy)-1-[(phosphonooxy)methyl]ethyl hexadecanoate (648 Da, Ligand)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphoinositol (836 Da, Ligand)
- Succinate dehydrogenase subunit b (29 kDa, Protein from Mycolicibacterium smegmatis MC2 51)
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 [ DOI: doi:10.1126/science.aat8923 Pubmed: 30361386 ]
- Cytochrome c oxidase polypeptide 4 (15 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Superoxide dismutase in complex with bcc-aa3 type ciii-civ supercomplex from mycobacterium smegmatis (800 kDa, Complex from Mycobacterium smegmatis MC2 51)
- Cardiolipin (1 kDa, Ligand)
- Palmitic acid (256 Da, Ligand)
- Cytochrome c oxidase subunit 1 (64 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Superoxide dismutase [cu-zn] (23 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Ubiquinol-cytochrome c reductase cytochrome b subunit (60 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 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)
- Copper (ii) ion (63 Da, Ligand)
- (2r)-3-(((2-aminoethoxy)(hydroxy)phosphoryl)oxy)-2-(palmitoyloxy)propyl (e)-octadec-9-enoate (717 Da, Ligand)
- Rieske iron-sulfur protein qcra (46 kDa, Protein from Mycobacterium smegmatis MC2 51)
- (2s)-1-(hexadecanoyloxy)propan-2-yl (10s)-10-methyloctadecanoate (594 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)
- Lpqe protein (19 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Heme c (618 Da, Ligand)
- Prokaryotic respiratory supercomplex associate factor 1 prsaf1 (11 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Cytochrome bc1 complex cytochrome c subunit (30 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Heme-a (852 Da, Ligand)
- Menaquinone-9 (785 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Cytochrome c oxidase subunit 3 (22 kDa, Protein from Mycobacterium smegmatis MC2 51)
- Uncharacterized protein msmeg_4692/msmei_4575 (15 kDa, Protein from Mycobacterium smegmatis MC2 51)