The local refined map of XBB spike protein (S) in complex with bispecific antibody G7-Fc
Resolution: 2.45 Å
EM Method: Single-particle
Fitted PDBs: 8jin
Q-score: 0.491
To Be Published
- Xbb spike protein (s) in complex with bispecific antibody g7-fc (Complex from Severe acute respiratory syndrome coronavirus 2)
- 7f3 fv (27 kDa, Protein from Homo sapiens)
- Gw01 fv (26 kDa, Protein from Homo sapiens)
- Spike glycoprotein (143 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
XBB spike protein (S) in complex with monoclonal antibody 6I18
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8jio
Q-score: 0.225
To Be Published
- 6i18 light chain (23 kDa, Protein from Homo sapiens)
- Spike glycoprotein (143 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 6i18 heavy chain (49 kDa, Protein from Homo sapiens)
- Xbb spike protein (s) in complex with monoclonal antibody 6i18 (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 9axf
Q-score: 0.56
Zuo H, Park J, Frangaj A, Ye J, Lu G, Manning JJ, Asher WB, Lu Z, Hu GB, Wang L, Mendez J, Eng E, Zhang Z, Lin X, Grassucci R, Hendrickson WA, Clarke OB, Javitch JA, Conigrave AD, Fan QR
Nature (2024) 629 pp. 481-488 [ DOI: doi:10.1038/s41586-024-07331-1 Pubmed: 38632411 ]
- Phosphate ion (94 Da, Ligand)
- Lauryl maltose neopentyl glycol (1 kDa, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Human casr in complex with chimeric gq (minigisq) protein (319 kDa, Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1,adenylate cyclase-stimulating g alpha protein (28 kDa, Protein from Homo sapiens)
- Extracellular calcium-sensing receptor (102 kDa, Protein from Homo sapiens)
- Single-chain antibody fragment scfv16 (31 kDa, Protein from Mus musculus)
- Cyclomethyltryptophan (216 Da, Ligand)
- 3-(2-chlorophenyl)-n-[(1r)-1-(3-methoxyphenyl)ethyl]propan-1-amine (303 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (38 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Nanobody nb-35 (17 kDa, Protein from Lama glama)
Structure of human calcium-sensing receptor in complex with Gi1 (miniGi1) protein in detergent
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 9ayf
Q-score: 0.529
Zuo H, Park J, Frangaj A, Ye J, Lu G, Manning JJ, Asher WB, Lu Z, Hu GB, Wang L, Mendez J, Eng E, Zhang Z, Lin X, Grassucci R, Hendrickson WA, Clarke OB, Javitch JA, Conigrave AD, Fan QR
Nature (2024) 629 pp. 481-488 [ DOI: doi:10.1038/s41586-024-07331-1 Pubmed: 38632411 ]
- Phosphate ion (94 Da, Ligand)
- Lauryl maltose neopentyl glycol (1 kDa, Ligand)
- Human casr in complex with minigi1 protein in detergent (301 kDa, Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (25 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- 3-(2-chlorophenyl)-n-[(1r)-1-(3-methoxyphenyl)ethyl]propan-1-amine (303 Da, Ligand)
- Single-chain antibody fragment scfv16 (31 kDa, Protein from Mus musculus)
- Cyclomethyltryptophan (216 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (38 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Isoform 1 of extracellular calcium-sensing receptor (102 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 S309-RBD-RBD-S309 in the S309-bound Omicron spike protein (local refinement)
Resolution: 2.66 Å
EM Method: Single-particle
Fitted PDBs: 7yad
Q-score: 0.439
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958-4958 [ DOI: doi:10.1038/s41467-022-32665-7 Pubmed: 36002453 ]
- Sars-cov-2 omicron rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- S309 neutralizing antibody light chain (11 kDa, Protein from Homo sapiens)
- S309 antibody fab (Complex)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S309 neutralizing antibody heavy chain (13 kDa, Protein from Homo sapiens)
- Cryo-em structure of the omicron rbd-rbd-s309 complex from the s309-bound omicron spike protein (local refinement) (Complex from Homo sapiens)
Resolution: 3.14 Å
EM Method: Single-particle
Fitted PDBs: 7yhk
Q-score: 0.556
Li T, Chen J, Zheng Q, Xue W, Zhang L, Rong R, Zhang S, Wang Q, Hong M, Zhang Y, Cui L, He M, Lu Z, Zhang Z, Chi X, Li J, Huang Y, Wang H, Tang J, Ying D, Zhou L, Wang Y, Yu H, Zhang J, Gu Y, Chen Y, Li S, Xia N
Nat Commun (2022) 13 pp. 5182-5182 [ Pubmed: 36056024 DOI: doi:10.1038/s41467-022-32926-5 ]
- Neutralizing antibody 12h5 (Complex from Mus musculus)
- Hemagglutinin (62 kDa, Protein from Influenza A virus (A/Beijing/262/1995(H1N1)))
- Ha trimer of a/beijing/262/1995(h1n1) (Complex from Influenza A virus (A/Beijing/262/1995(H1N1)))
- 12h5 heavy chain (12 kDa, Protein from Mus musculus)
- 12h5 light chain (12 kDa, Protein from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cryo-em structure of the ha trimer of a/beijing/262/1995(h1n1) in complex with neutralizing antibody 12h5 (Complex)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7x6l
Q-score: 0.167
Sun X, Liu C, Lu X, Ling Z, Yi C, Zhang Z, Li Z, Jin M, Wang W, Tang S, Wang F, Wang F, Wangmo S, Chen S, Li L, Ma L, Zhang Y, Yang Z, Dong X, Qian Z, Ding J, Wang D, Cong Y, Sun B
Nat Commun (2022) 13 pp. 2378-2378 [ Pubmed: 35501328 DOI: doi:10.1038/s41467-022-29950-w ]
- The light chain of the antibody 12 fab (23 kDa, Protein from Homo sapiens)
- Hemagglutinin (20 kDa, Protein from Influenza A virus)
- Heavy chain of antibody 12 fab (24 kDa, Protein from Homo sapiens)
- Cryo-em structure of h3 hemagglutinin from a/hongkong/01/1968 in complex with a neutralizing antibody 28-12 (Complex from Influenza A virus)
- Hemagglutinin (36 kDa, Protein from Influenza A virus (A/Hong Kong/1/1968(H3N2)))