Locally refined region of SARS-CoV-2 spike in complex with antibodies 9G11 and 3E2.
Resolution: 3.46 Å
EM Method: Single-particle
Fitted PDBs: 9lae
Q-score: 0.522
Jiang W, Jiang Y, Sun H, Deng T, Yu K, Fang Q, Ge H, Lan M, Lin Y, Fang Z, Zhang Y, Zhou L, Li T, Yu H, Zheng Q, Li S, Xia N, Gu Y
Emerg Microbes Infect (2024) 13 pp. 2406300- [ DOI: doi:10.1038/s41467-023-39265-z Pubmed: 39470577 ]
- Heavy chain of 9g11 (13 kDa, Protein from Mus musculus)
- Spike protein s1 (25 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of 3e2 (11 kDa, Protein from Mus musculus)
- The fab of 3e2 (Complex from Mus musculus)
- Light chain of 9g11 (11 kDa, Protein from Mus musculus)
- Heavy chain of 3e2 (13 kDa, Protein from Mus musculus)
- Sars-cov-2 spike in complex with antibodies 9g11 and 3e2 (Complex)
- The fab of 9g11 (Complex from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Structure of SARS-CoV-2 Spike in complex with antibodies 3E2, 9G11 and 13H7.
Structure of SARS-CoV-2 Spike in complex with antibodies 3E2, 9G11 and 13H7 (C1)
Jiang W, Jiang Y, Sun H, Deng T, Yu K, Fang Q, Ge H, Lan M, Lin Y, Fang Z, Zhang Y, Zhou L, Li T, Yu H, Zheng Q, Li S, Xia N, Gu Y
Emerg Microbes Infect (2024) 13 pp. 2406300-2406300 [ Pubmed: 39470577 DOI: doi:10.1080/22221751.2024.2406300 ]
- The fab of 13h7 (Complex from Mus)
- The fab of 3e2 (Complex)
- Sars-cov-2 spike (Complex from Homo sapiens)
- The fab of 9g11 (Complex from Mus)
- Sars-cov-2 spike in complex with 3e2, 9g11 and 13h7 fab (Complex)
The structure of type III CRISPR-associated deaminase in complex cA6 and ATP, fully activated
Li Y, Li Z, Yan P, Hua C, Kong J, Wu W, Cui Y, Duan Y, Li S, Li G, Ji S, Chen Y, Zhao Y, Yang P, Hu C, Lu M, Chen M, Xiao Y
Science (2025) 387 pp. eadr0393-eadr0393 [ DOI: doi:10.1126/science.adr0393 Pubmed: 39666823 ]
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Adenosine deaminase domain-containing protein (69 kDa, Protein from Limisphaera ngatamarikiensis)
- Rna (5'-r(p*ap*ap*ap*ap*ap*a)-3') (1 kDa, RNA from Limisphaera ngatamarikiensis)
- Caad:ca6:atp 6:3:6 (Complex from Limisphaera ngatamarikiensis)
- Adenosine-5'-triphosphate (507 Da, Ligand)
The structure of type III CRISPR-associated deaminase in complex cA4
Li Y, Li Z, Yan P, Hua C, Kong J, Wu W, Cui Y, Duan Y, Li S, Li G, Ji S, Chen Y, Zhao Y, Yang P, Hu C, Lu M, Chen M, Xiao Y
Science (2025) 387 pp. eadr0393-eadr0393 [ DOI: doi:10.1126/science.adr0393 Pubmed: 39666823 ]
- Adenosine deaminase domain-containing protein (70 kDa, Protein from Limisphaera ngatamarikiensis)
- Zinc ion (65 Da, Ligand)
- Crispr-associated adenosine deaminase (Complex from Limisphaera ngatamarikiensis)
- 3'-o-[(r)-{[(2s,3as,4s,6s,6as)-6-(6-amino-9h-purin-9-yl)-2-hydroxy-2-oxotetrahydro-2h-2lambda~5~-furo[3,4-d][1,3,2]dioxaphosphol-4-yl]methoxy}(hydroxy)phosphoryl]adenosine (658 Da, Ligand)
The structure of type III CRISPR-associated deaminase in complex 2cA6 and 2ATP, partial activated
Li Y, Li Z, Yan P, Hua C, Kong J, Wu W, Cui Y, Duan Y, Li S, Li G, Ji S, Chen Y, Zhao Y, Yang P, Hu C, Lu M, Chen M, Xiao Y
Science (2025) 387 pp. eadr0393-eadr0393 [ DOI: doi:10.1126/science.adr0393 Pubmed: 39666823 ]
- Zinc ion (65 Da, Ligand)
- Crispr-associated adenosine deaminase (Complex from Limisphaera ngatamarikiensis)
- Adenosine deaminase domain-containing protein (70 kDa, Protein from Limisphaera ngatamarikiensis)
- Rna (5'-r(p*ap*ap*ap*ap*ap*a)-3') (1 kDa, RNA from Limisphaera ngatamarikiensis)
- Adenosine-5'-triphosphate (507 Da, Ligand)
CryoEM structure of compound HNC-1664 bound with RdRP-RNA complex of SARS-CoV-2
Resolution: 3.29 Å
EM Method: Single-particle
Fitted PDBs: 8xko
Q-score: 0.486
Jia X, Jing X, Li M, Gao M, Zhong Y, Li E, Liu Y, Li R, Yao G, Liu Q, Zhou M, Hou Y, An L, Hong Y, Li S, Zhang J, Wang W, Zhang K, Gong P, Chiu S
Nat Commun (2024) 15 pp. 10750-10750 [ Pubmed: 39737930 DOI: doi:10.1038/s41467-024-54918-3 ]
- Rna (5'-r(p*up*up*cp*ap*up*gp*cp*up*ap*cp*gp*cp*gp*up*ap*g)-3') (5 kDa, RNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Non-structural protein 7 (10 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- Rna (5'-r(p*cp*up*ap*cp*gp*cp*gp*up*ap*gp*cp*ap*up*g)-3') (4 kDa, RNA from synthetic construct)
- Cryoem structure of compound hnc-1644 bound with rdrp-rna (150 kDa, Complex from Severe acute respiratory syndrome coronavirus)
- [[(2~{r},3~{r},4~{s},5~{r})-4-fluoranyl-5-(5-iodanyl-4-methyl-pyrrolo[2,3-d]pyrimidin-7-yl)-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate (633 Da, Ligand)
- Rna-directed rna polymerase nsp12 (108 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Non-structural protein 8 (23 kDa, Protein from Severe acute respiratory syndrome coronavirus)
Resolution: 3.02 Å
EM Method: Single-particle
Fitted PDBs: 8xpo
Q-score: 0.554
Jia X, Jing X, Li M, Gao M, Zhong Y, Li E, Liu Y, Li R, Yao G, Liu Q, Zhou M, Hou Y, An L, Hong Y, Li S, Zhang J, Wang W, Zhang K, Gong P, Chiu S
Nat Commun (2024) 15 pp. 10750-10750 [ Pubmed: 39737930 DOI: doi:10.1038/s41467-024-54918-3 ]
- Rna (32-mer) (10 kDa, RNA from synthetic construct)
- Rna (9-mer) (2 kDa, RNA from synthetic construct)
- Rna (14-mer) (4 kDa, RNA from synthetic construct)
- Rna (Complex from synthetic construct)
- [[(2~{r},3~{r},4~{s},5~{r})-4-fluoranyl-5-(5-iodanyl-4-methyl-pyrrolo[2,3-d]pyrimidin-7-yl)-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate (633 Da, Ligand)
- Rna-directed rna polymerase l (255 kDa, Protein from Lassa virus Josiah)
- Lassa virus rdrp elongation complex with the ntp form of compound 13b bound in the active site (270 kDa, Complex)
- Lassa virus l protein (Complex from Lassa virus Josiah)
The cryo-EM map of TIC-TIEA complex
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8k59
Q-score: 0.337
Zhang KN, Liu Y, Chen M, Wang Y, Lin W, Li M, Zhang X, Gao Y, Gong Q, Chen H, Steve M, Li S, Zhang K, Liu B
To Be Published
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli K-12)
- Dna (63-mer) (19 kDa, DNA from Escherichia coli K-12)
- Rna (5'-r(*ap*gp*gp*up*a)-3') (1 kDa, RNA from Escherichia coli K-12)
- Dna-directed rna polymerase subunit beta' (150 kDa, Protein from Escherichia coli K-12)
- Dna-directed rna polymerase subunit alpha (25 kDa, Protein from Escherichia coli K-12)
- The cryo-em map of tic-tiea complex (400 kDa, Complex from Escherichia coli K-12)
- 15 kda rna polymerase-binding protein (14 kDa, Protein from Escherichia phage T4)
- Dna (61-mer) (18 kDa, DNA from Escherichia coli K-12)
- Dna-directed rna polymerase subunit omega (8 kDa, Protein from Escherichia coli K-12)
- Rna polymerase sigma factor rpod (60 kDa, Protein from Escherichia coli K-12)
CryoEM structure of Gq coupled MRGPRX4 with agonist DCA-3P
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8k4s
Q-score: 0.521
Yang J, Zhao T, Fan J, Zou H, Lan G, Guo F, Shi Y, Ke H, Yu H, Yue Z, Wang X, Bai Y, Li S, Liu Y, Wang X, Chen Y, Li Y, Lei X
Cell (2024) 187 pp. 7164-7182.e18 [ Pubmed: 39476841 DOI: doi:10.1016/j.cell.2024.10.001 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (8 kDa, Protein from Homo sapiens)
- Scfv16 (26 kDa, Protein from Mus musculus)
- (4~{r})-4-[(3~{r},5~{r},8~{r},9~{s},10~{s},12~{s},13~{r},14~{s},17~{r})-10,13-dimethyl-12-oxidanyl-3-phosphonooxy-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1~{h}-cyclopenta[a]phenanthren-17-yl]pentanoic acid (472 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Gs-mini-gq chimera (28 kDa, Protein from Homo sapiens)
- Soluble cytochrome b562,mas-related g-protein coupled receptor member x4,green fluorescent protein (79 kDa, Protein from Aequorea victoria)
- Complex of mrgprx4 with gq and agonist dca-3p (Complex from Homo sapiens)