Cryo-EM structure of BG505 Env mutant A517E in complex with antibody ACS202 Fab
Reveiz M, Xu K, Lee M, Wang S, Olia AS, Harris DR, Liu K, Liu T, Schaub AJ, Stephens T, Wang Y, Zhang B, Huang R, Tsybovsky Y, Kwong PD, Rawi R
Front Immunol (2024) 15 pp. 1484029-1484029 [ Pubmed: 39611147 DOI: doi:10.3389/fimmu.2024.1484029 ]
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Hiv-1 env trimer complexed with antibody fab (Complex from Human immunodeficiency virus 1)
- Water (18 Da, Ligand)
- Antibody acs202 fab light chain (23 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp120 (53 kDa, Protein from Human immunodeficiency virus 1)
- Antibody acs202 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Antibody fab (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Lysophosphatidylserine receptor GPR34-Gi complex
Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 8iz4
Q-score: 0.52
Gong W, Liu G, Li X, Wang Y, Zhang X
To Be Published
- Antibody fragment scfv16 (27 kDa, Protein from synthetic construct)
- [(2~{r})-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate (438 Da, Ligand)
- Serine (105 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Probable g-protein coupled receptor 34 (64 kDa, Protein from Homo sapiens)
- Lysops-gpr34-gi-scfv16 complex (Complex from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (40 kDa, Protein from Homo sapiens)
Cryo-EM structure of SEP-363856 bounded serotonin 1A (5-HT1A) receptor-Gi protein complex
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8w8b
Q-score: 0.55
Liu H, Zheng Y, Wang Y, Wang Y, He X, Xu P, Huang S, Yuan Q, Zhang X, Wang L, Jiang K, Chen H, Li Z, Liu W, Wang S, Xu HE, Xu F
Nature (2023) 624 pp. 663-671 [ Pubmed: 37935377 DOI: doi:10.1038/s41586-023-06775-1 ]
- Palmitic acid (256 Da, Ligand)
- Antibody fragment scfv16 (28 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Cryo-em structure of sep-363856 bounded serotonin 1a (5-ht1a) receptor-gi protein complex (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Soluble cytochrome b562,5-hydroxytryptamine receptor 1a (60 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- 1-[(7~{s})-5,7-dihydro-4~{h}-thieno[2,3-c]pyran-7-yl]-~{n}-methyl-methanamine (183 Da, Ligand)
Lysophosphatidylserine receptor GPR34-Gi complex
Resolution: 2.91 Å
EM Method: Single-particle
Fitted PDBs: 8wrb
Q-score: 0.545
Liu G, Li X, Wang Y, Zhang X, Gong W
PLoS Biol (2023) 21 pp. e3002387-e3002387 [ DOI: doi:10.1371/journal.pbio.3002387 Pubmed: 38048360 ]
- Antibody fragment scfv16 (27 kDa, Protein from synthetic construct)
- Serine (105 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- [(2r)-2-oxidanyl-3-phosphonooxy-propyl] (z)-octadec-9-enoate (436 Da, Ligand)
- Lysops-gpr34-gi-scfv16 complex (Complex from Homo sapiens)
- Probable g-protein coupled receptor 34,tag (64 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (40 kDa, Protein from Homo sapiens)
SARS-CoV-2 S ectodomain trimer in complex with neutralizing antibody 10-5B
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7xd2
Q-score: 0.367
Liu Y, Wang Z, Zhuang X, Zhang S, Chen Z, Zou Y, Sheng J, Li T, Tai W, Yu J, Wang Y, Zhang Z, Chen Y, Tong L, Yu X, Wu L, Chen D, Zhang R, Jin N, Shen W, Zhao J, Tian M, Wang X, Cheng G
Nat Commun (2023) 14 pp. 2179-2179 [ Pubmed: 37069158 DOI: doi:10.1038/s41467-023-37926-7 ]
- Spike+antibody (Complex from Severe acute respiratory syndrome coronavirus 2)
- L chian of antibody 10-5b (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (143 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- H chain of antibody 10-5b (12 kDa, Protein from Homo sapiens)
SARS-CoV-2 BA.4 variants S ectodomain trimer in complex with neutralizing antibody 10-5B and 6-2C
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8h07
Q-score: 0.298
Liu Y, Wang Z, Zhuang X, Zhang S, Chen Z, Zou Y, Sheng J, Li T, Tai W, Yu J, Wang Y, Zhang Z, Chen Y, Tong L, Yu X, Wu L, Chen D, Zhang R, Jin N, Shen W, Zhao J, Tian M, Wang X, Cheng G
Nat Commun (2023) 14 pp. 2179-2179 [ Pubmed: 37069158 DOI: doi:10.1038/s41467-023-37926-7 ]
- Sars-cov-2 ba.4 variants spike (Complex)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 10-5b h chain (12 kDa, Protein from Homo sapiens)
- 10-5b l chain (11 kDa, Protein from Homo sapiens)
- 6-2c h chain (13 kDa, Protein from Homo sapiens)
- 6-2c l chain (11 kDa, Protein from Homo sapiens)
- Antibody (Cellular component from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 ba.4 variants spike (Cellular component from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 BA.1 variants S ectodomain trimer in complex with neutralizing antibody 10-5B and 6-2C
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8h08
Q-score: 0.3
Liu Y, Wang Z, Zhuang X, Zhang S, Chen Z, Zou Y, Sheng J, Li T, Tai W, Yu J, Wang Y, Zhang Z, Chen Y, Tong L, Yu X, Wu L, Chen D, Zhang R, Jin N, Shen W, Zhao J, Tian M, Wang X, Cheng G
Nat Commun (2023) 14 pp. 2179-2179 [ Pubmed: 37069158 DOI: doi:10.1038/s41467-023-37926-7 ]
- Sars-cov-2 ba.1 variants spike (Complex)
- Sars-cov-2 ba.1 variants spike (Cellular component from Severe acute respiratory syndrome coronavirus 2)
- 10-5b h chain (12 kDa, Protein from Homo sapiens)
- 10-5b l chain (11 kDa, Protein from Homo sapiens)
- 6-2c h chain (13 kDa, Protein from Homo sapiens)
- 6-2c l chain (11 kDa, Protein from Homo sapiens)
- Antibody (Cellular component from Homo sapiens)
- Spike glycoprotein (144 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of expanded coxsackievirus A16 empty particle after incubation with 8C4 antibody
Resolution: 3.36 Å
EM Method: Single-particle
Fitted PDBs: 7yv2
Q-score: 0.464
Zhang C, Liu C, Shi J, Wang Y, Xu C, Ye X, Liu Q, Li X, Qiao W, Yin Y, Cong Y, Huang Z
Nat Commun (2022) 13 pp. 7854-7854 [ DOI: doi:10.1038/s41467-022-35575-w Pubmed: 36543790 ]
- Capsid protein vp2 (27 kDa, Protein from Coxsackievirus A16)
- Capsid protein vp1 (33 kDa, Protein from Coxsackievirus A16)
- Capsid protein vp3 (26 kDa, Protein from Coxsackievirus A16)
- Cryo-em structure of expanded coxsackievirus a16 empty particle after incubation with 8c4 antibody (Complex from Coxsackievirus A16)
Cryo-EM structure of expanded coxsackievirus A16 empty particle in complex with antibody 9B5
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7yv7
Q-score: 0.274
Zhang C, Liu C, Shi J, Wang Y, Xu C, Ye X, Liu Q, Li X, Qiao W, Yin Y, Cong Y, Huang Z
Nat Commun (2022) 13 pp. 7854-7854 [ DOI: doi:10.1038/s41467-022-35575-w Pubmed: 36543790 ]
- The light chain of antibody 9b5 (23 kDa, Protein from Coxsackievirus A16)
- Capsid protein vp3 (26 kDa, Protein from Coxsackievirus A16)
- Capsid protein vp2 (27 kDa, Protein from Coxsackievirus A16)
- The heavy chain of antibody 9b5 (23 kDa, Protein from Coxsackievirus A16)
- Cryo-em structure of expanded coxsackievirus a16 empty particle in complex with antibody 9b5 (Complex from Coxsackievirus A16)
- Capsid protein vp1 (33 kDa, Protein from Coxsackievirus A16)
Cryo-EM structure of compact CA16 empty particle in complex with a neutralizing antibody 8C4
Resolution: 2.91 Å
EM Method: Single-particle
Fitted PDBs: 7yrf
Q-score: 0.433
Zhang C, Liu C, Shi J, Wang Y, Xu C, Ye X, Liu Q, Li X, Qiao W, Yin Y, Cong Y, Huang Z
Nat Commun (2022) 13 pp. 7854-7854 [ DOI: doi:10.1038/s41467-022-35575-w Pubmed: 36543790 ]
- Capsid protein vp3 (26 kDa, Protein from Coxsackievirus A16)
- Genome polyprotein (25 kDa, Protein from Coxsackievirus A16)
- Light chain of chain (23 kDa, Protein from Coxsackievirus A16)
- The heavy chain of the antibody 8c4 (22 kDa, Protein from Coxsackievirus A16)
- Sphingosine (299 Da, Ligand)
- Genome polyprotein (33 kDa, Protein from Coxsackievirus A16)
- Cryo-em structure of compact ca16 empty particle in complex with a neutralizing antibody 8c4 (Complex from Coxsackievirus A16)