SARS-CoV-2 spike trimer (6P) in complex with three H18 Fabs, head-to-head aggregate (C1 symmetry)
Yan Q, Gao X, Liu B, Hou R, He P, Ma Y, Zhang Y, Zhang Y, Li Z, Chen Q, Wang J, Huang X, Liang H, Zheng H, Yao Y, Chen X, Niu X, He J, Chen L, Zhao J, Xiong X
Nat Commun (2024) 15 pp. 7585-7585 [ DOI: doi:10.1038/s41467-024-51770-3 Pubmed: 39217172 ]
- Heavy chain of h18 fab (25 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Light chain of h18 fab (25 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike trimer (6p) in complex with three h18 fabs, head-to-head aggregate (c1 symmetry) (Complex from Severe acute respiratory syndrome coronavirus 2)
- H18 fab (Complex from Homo sapiens)
- Spike glycoprotein,fibritin,expression tag (141 kDa, Protein from synthetic construct)
- Sars-cov-2 spike trimer (6p) (Complex from Severe acute respiratory syndrome coronavirus 2)
Double nuclear outer ring of Nup84-complexes from the yeast NPC
Resolution: 8.1 Å
EM Method: Single-particle
Fitted PDBs: 8tie
Q-score: 0.08
Akey CW, Echeverria I, Ouch C, Nudelman I, Shi Y, Wang J, Chait BT, Sali A, Fernandez-Martinez J, Rout MP
Mol Cell (2023) 83 pp. 3283-3302.e5 [ DOI: doi:10.1016/j.molcel.2023.08.025 Pubmed: 37738963 ]
- Nucleoporin nup120 (120 kDa, Protein from Saccharomyces cerevisiae)
- Nuclear pore complex (Complex from Saccharomyces cerevisiae)
- Nucleoporin nup84 (83 kDa, Protein from Saccharomyces cerevisiae)
- Nup133 isoform 1 (133 kDa, Protein from Saccharomyces cerevisiae)
- Nucleoporin seh1 (34 kDa, Protein from Saccharomyces cerevisiae)
- Double nup84 y-complex (Complex from Saccharomyces cerevisiae)
- Nup145 isoform 1 (145 kDa, Protein from Saccharomyces cerevisiae)
- Nucleoporin nup85 (84 kDa, Protein from Saccharomyces cerevisiae)
- Protein transport protein sec13 (33 kDa, Protein from Saccharomyces cerevisiae)
Double nuclear outer ring from the isolated yeast NPC
Resolution: 11.6 Å
EM Method: Single-particle
Fitted PDBs: 7n84
Q-score: 0.063
Akey CW, Singh D, Ouch C, Echeverria I, Nudelman I, Varberg JM, Yu Z, Fang F, Shi Y, Wang J, Salzberg D, Song K, Xu C, Gumbart JC, Suslov S, Unruh J, Jaspersen SL, Chait BT, Sali A, Fernandez-Martinez J, Ludtke SJ, Villa E, Rout MP
Cell (2022) 185 pp. 361-378.e25 [ Pubmed: 34982960 DOI: doi:10.1016/j.cell.2021.12.015 ]
- Nucleoporin seh1 (39 kDa, Protein from Saccharomyces cerevisiae)
- Nucleoporin 145c (81 kDa, Protein from Saccharomyces cerevisiae)
- Yeast double outer ring (10 MDa, Complex from Saccharomyces cerevisiae)
- Nucleoporin nup120 (120 kDa, Protein from Saccharomyces cerevisiae)
- Nucleoporin nup84 (83 kDa, Protein from Saccharomyces cerevisiae)
- Nucleoporin nup188 (188 kDa, Protein from Saccharomyces cerevisiae)
- Nucleoporin nup133 (133 kDa, Protein from Saccharomyces cerevisiae)
- Unknown (5 kDa, Protein from Saccharomyces cerevisiae)
- Nucleoporin nup85 (84 kDa, Protein from Saccharomyces cerevisiae)
- Protein transport protein sec13 (33 kDa, Protein from Saccharomyces cerevisiae)
Helical reconstruction of Dengue virus serotype 3 complexed with Fab C10
Resolution: 10.4 Å
EM Method: Helical reconstruction
Fitted PDBs: 7c2s
Q-score: 0.075
Morrone SR, Chew VSY, Lim XN, Ng TS, Kostyuchenko VA, Zhang S, Wirawan M, Chew PL, Lee J, Tan JL, Wang J, Tan TY, Shi J, Screaton G, Morais MC, Lok SM
Nat Commun (2020) 11 pp. 3112-3112 [ DOI: doi:10.1038/s41467-020-16925-y Pubmed: 32561757 ]
- Envelope protein (43 kDa, Protein from Dengue virus 3)
- Heavy chain of fab c10 (14 kDa, Protein from Homo sapiens)
- Dengue virus serotype 3 (Complex from Dengue virus 3)
- Light chain of fab c10 (11 kDa, Protein from Homo sapiens)
- C10 fab (Complex from Homo sapiens)
- Helical reconstruction of dengue virus serotype 3 complexed with fab c10 (Complex)
Cryo-EM structure of immature Zika virus in complex with human antibody DV62.5 Fab
Resolution: 8.0 Å
EM Method: Single-particle
Fitted PDBs: 6lnt
Q-score: 0.127
Tan TY, Fibriansah G, Kostyuchenko VA, Ng TS, Lim XX, Zhang S, Lim XN, Wang J, Shi J, Morais MC, Corti D, Lok SM
Nat Commun (2020) 11 pp. 895-895 [ Pubmed: 32060358 DOI: doi:10.1038/s41467-020-14647-9 ]
- Capsid protein (12 kDa, Protein from Zika virus (isolate ZIKV/Human/French Polynesia/10087PF/2013))
- Anti-prm antibody dv62.5 (Complex from Homo sapiens)
- Zika virus zikv/h. sapiens/frenchpolynesia/10087pf/2013 (Virus)
- Pre-membrane protein (18 kDa, Protein from Zika virus (isolate ZIKV/Human/French Polynesia/10087PF/2013))
- Envelope protein (54 kDa, Protein from Zika virus (isolate ZIKV/Human/French Polynesia/10087PF/2013))
- Zika virus (Complex from Zika virus ZIKV/H. sapiens/FrenchPolynesia/10087PF/2013)
- Fab dv62.5 light-chain variable region (11 kDa, Protein from Homo sapiens)
- Fab dv62.5 heavy-chain variable region (13 kDa, Protein from Homo sapiens)
Cryo-EM structure of immature Zika virus
Resolution: 9.0 Å
EM Method: Single-particle
Fitted PDBs: 6lnu
Q-score: 0.133
Tan TY, Fibriansah G, Kostyuchenko VA, Ng TS, Lim XX, Zhang S, Lim XN, Wang J, Shi J, Morais MC, Corti D, Lok SM
Nat Commun (2020) 11 pp. 895-895 [ Pubmed: 32060358 DOI: doi:10.1038/s41467-020-14647-9 ]
- Genome polyprotein (18 kDa, Protein from Zika virus (isolate ZIKV/Human/French Polynesia/10087PF/2013))
- Genome polyprotein (54 kDa, Protein from Zika virus (isolate ZIKV/Human/French Polynesia/10087PF/2013))
- Zika virus zikv/h. sapiens/frenchpolynesia/10087pf/2013 (Virus from Zika virus ZIKV/H. sapiens/FrenchPolynesia/10087PF/2013)
Cryo-EM structure of YebT in conformation 2
Liu C, Ma J, Wang J, Wang HW, Zhang L
J Mol Biol (2020) 432 pp. 1008-1019 [ Pubmed: 31870848 DOI: doi:10.1016/j.jmb.2019.12.008 ]
- Yebt (570 kDa, Complex from Escherichia coli K-12)
- Yebt (Protein from Escherichia coli K-12)