Cryo-EM structure of SARS-CoV-2 Delta Spike protein in complex with BA7208 and BA7125 fab
Resolution: 3.08 Å
EM Method: Single-particle
Fitted PDBs: 7xdl
Q-score: 0.5
Wang Y, Yan A, Song D, Dong C, Rao M, Gao Y, Qi R, Ma X, Wang Q, Xu H, Liu H, Han J, Duan M, Liu S, Yu X, Zong M, Feng J, Jiao J, Zhang H, Li M, Yu B, Wang Y, Meng F, Ni X, Li Y, Shen Z, Sun B, Shao X, Zhao H, Zhao Y, Li R, Zhang Y, Du G, Lu J, You C, Jiang H, Zhang L, Wang L, Dou C, Liu Z, Zhao J
Cell Discov (2023) 9 pp. 3-3 [ DOI: doi:10.1038/s41421-022-00509-9 Pubmed: 36609558 ]
- Ba7208 fab (11 kDa, Protein from Homo sapiens)
- Ba7208 fab (13 kDa, Protein from Homo sapiens)
- Ba7208 and ba7125 fab (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 delta spike protein (Complex from Homo sapiens)
- Ba7125 fab (22 kDa, Protein from Homo sapiens)
- Cryo-em structure of sars-cov-2 delta spike protein in complex with ba7208 and ba7125 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ba7125 fab (22 kDa, Protein from Homo sapiens)
- Spike glycoprotein (123 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Cryo-EM structure of SARS-CoV-2 Delta RBD in complex with BA7054 and BA7125 fab (local refinement)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7xcz
Q-score: 0.528
Wang Y, Yan A, Song D, Dong C, Rao M, Gao Y, Qi R, Ma X, Wang Q, Xu H, Liu H, Han J, Duan M, Liu S, Yu X, Zong M, Feng J, Jiao J, Zhang H, Li M, Yu B, Wang Y, Meng F, Ni X, Li Y, Shen Z, Sun B, Shao X, Zhao H, Zhao Y, Li R, Zhang Y, Du G, Lu J, You C, Jiang H, Zhang L, Wang L, Dou C, Liu Z, Zhao J
Cell Discov (2023) 9 pp. 3-3 [ Pubmed: 36609558 DOI: doi:10.1038/s41421-022-00509-9 ]
- Spike glycoprotein (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Ba7054 fab (23 kDa, Protein from Homo sapiens)
- Ba7054 fab (23 kDa, Protein from Homo sapiens)
- Ba7054 and ba7125 fab (Complex)
- Sars-cov-2 delta rbd (Complex from Homo sapiens)
- Ba7125 fab (23 kDa, Protein from Homo sapiens)
- Cryo-em structure of sars-cov-2 delta rbd in complex with ba7054 and ba7125 fab (local refinement) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ba7125 fab (23 kDa, Protein from Homo sapiens)
Cryo-EM structure of SARS-CoV-2 Delta RBD in complex with BA7208 and BA7125 fab (local refinement)
Resolution: 2.98 Å
EM Method: Single-particle
Fitted PDBs: 7xda
Q-score: 0.526
Wang Y, Yan A, Song D, Dong C, Rao M, Gao Y, Qi R, Ma X, Wang Q, Xu H, Liu H, Han J, Duan M, Liu S, Yu X, Zong M, Feng J, Jiao J, Zhang H, Li M, Yu B, Wang Y, Meng F, Ni X, Li Y, Shen Z, Sun B, Shao X, Zhao H, Zhao Y, Li R, Zhang Y, Du G, Lu J, You C, Jiang H, Zhang L, Wang L, Dou C, Liu Z, Zhao J
Cell Discov (2023) 9 pp. 3-3 [ DOI: doi:10.1038/s41421-022-00509-9 Pubmed: 36609558 ]
- Spike glycoprotein (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Cryo-em structure of sars-cov-2 delta rbd in complex with ba7208 and ba7125 fab (local refinement) (Complex from Homo sapiens)
- Ba7125 fab (23 kDa, Protein from Homo sapiens)
- Ba7208 fab (24 kDa, Protein from Homo sapiens)
- Ba7208 fab (23 kDa, Protein from Homo sapiens)
- Ba7125 fab (23 kDa, Protein from Homo sapiens)
Cryo-EM structure of SARS-CoV-2 Omicron Spike protein in complex with BA7208 fab
Resolution: 2.62 Å
EM Method: Single-particle
Fitted PDBs: 7xdb
Q-score: 0.502
Wang Y, Yan A, Song D, Dong C, Rao M, Gao Y, Qi R, Ma X, Wang Q, Xu H, Liu H, Han J, Duan M, Liu S, Yu X, Zong M, Feng J, Jiao J, Zhang H, Li M, Yu B, Wang Y, Meng F, Ni X, Li Y, Shen Z, Sun B, Shao X, Zhao H, Zhao Y, Li R, Zhang Y, Du G, Lu J, You C, Jiang H, Zhang L, Wang L, Dou C, Liu Z, Zhao J
Cell Discov (2023) 9 pp. 3-3 [ DOI: doi:10.1038/s41421-022-00509-9 Pubmed: 36609558 ]
- Ba7208 fab (13 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron spike protein (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cryo-em structure of sars-cov-2 omicron spike protein in complex with ba7208 fab (Complex from Homo sapiens)
- Ba7208 fab (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (124 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Ba7208 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
Cryo-EM structure of SARS-CoV-2 Delta Spike protein in complex with BA7054 and BA7125 fab
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7xdk
Q-score: 0.496
Wang Y, Yan A, Song D, Dong C, Rao M, Gao Y, Qi R, Ma X, Wang Q, Xu H, Liu H, Han J, Duan M, Liu S, Yu X, Zong M, Feng J, Jiao J, Zhang H, Li M, Yu B, Wang Y, Meng F, Ni X, Li Y, Shen Z, Sun B, Shao X, Zhao H, Zhao Y, Li R, Zhang Y, Du G, Lu J, You C, Jiang H, Zhang L, Wang L, Dou C, Liu Z, Zhao J
Cell Discov (2023) 9 pp. 3-3 [ DOI: doi:10.1038/s41421-022-00509-9 Pubmed: 36609558 ]
- Spike glycoprotein (123 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ba7054 fab (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 delta spike protein (Complex from Homo sapiens)
- Ba7054 and ba7125 fab (Complex)
- Cryo-em structure of sars-cov-2 delta spike protein in complex with ba7054 and ba7125 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ba7054 fab (13 kDa, Protein from Homo sapiens)
- Ba7125 fab (22 kDa, Protein from Homo sapiens)
- Ba7125 fab (23 kDa, Protein from Homo sapiens)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7xlq
Q-score: 0.482
Gao Y, Xu S, Cui X, Xu H, Qiu Y, Wei Y, Dong Y, Zhu B, Peng C, Liu S, Zhang XC, Sun J, Huang Z, Zhao Y
Nat Commun (2023) 14 pp. 516-516 [ Pubmed: 36720859 DOI: doi:10.1038/s41467-023-36260-2 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Voltage-dependent l-type calcium channel subunit beta-1 (65 kDa, Protein from Homo sapiens)
- Hexadecane (226 Da, Ligand)
- Human r-type voltage-gated calcium channel cav2.3-alpha2/delta1-beta1 complex (Complex from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Voltage-dependent r-type calcium channel subunit alpha-1e (262 kDa, Protein from Homo sapiens)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (122 kDa, Protein from Homo sapiens)
cryo-EM structure of human NaV1.3/beta1/beta2-bulleyaconitineA
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7w77
Q-score: 0.449
Li X, Xu F, Xu H, Zhang S, Gao Y, Zhang H, Dong Y, Zheng Y, Yang B, Sun J, Zhang XC, Zhao Y, Jiang D
Nat Commun (2022) 13 pp. 1286-1286 [ DOI: doi:10.1038/s41467-022-28808-5 Pubmed: 35277491 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- (3beta,14beta,17beta,25r)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en (544 Da, Ligand)
- Sodium channel complex of type 3 subunit alpha with auxiliary subunits bata-1 and bata-2 (Complex from Homo sapiens)
- Sodium channel protein type 3 subunit alpha (221 kDa, Protein from Homo sapiens)
- [(1s,2r,3r,4r,5r,6s,8r,9s,13s,16s,17r,18r)-11-ethyl-5-hydroxy-6,16,18-trimethoxy-4-(4-methoxybenzoyl)-13-(methoxymethyl)-11-azahexacyclo[7.7.2.12,5.01,10.03,8.013,17]nonadecan-8-yl] acetate (627 Da, Ligand)
- Sodium channel subunit beta-1 (24 kDa, Protein from Homo sapiens)
- Sodium channel subunit beta-2 (24 kDa, Protein from Homo sapiens)
- [(2~{r})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{z})-octadec-9-enoate (717 Da, Ligand)
Cryo-EM structure of human NaV1.3/beta1/beta2-ICA121431
Resolution: 3.35 Å
EM Method: Single-particle
Fitted PDBs: 7w7f
Q-score: 0.44
Li X, Xu F, Xu H, Zhang S, Gao Y, Zhang H, Dong Y, Zheng Y, Yang B, Sun J, Zhang XC, Zhao Y, Jiang D
Nat Commun (2022) 13 pp. 1286-1286 [ DOI: doi:10.1038/s41467-022-28808-5 Pubmed: 35277491 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- (3beta,14beta,17beta,25r)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en (544 Da, Ligand)
- 2,2-diphenyl-~{n}-[4-(1,3-thiazol-2-ylsulfamoyl)phenyl]ethanamide (449 Da, Ligand)
- Sodium channel subunit beta-1 (24 kDa, Protein from Homo sapiens)
- Sodium channel complex of type 3 subunit alpha with auxiliary beta-1 and beta-2 (Complex from Homo sapiens)
- Sodium channel protein type 3 subunit alpha (226 kDa, Protein from Homo sapiens)
- Sodium channel subunit beta-2 (24 kDa, Protein from Homo sapiens)
- [(2~{r})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{z})-octadec-9-enoate (717 Da, Ligand)
Structure of a human glycosylphosphatidylinositol (GPI) transamidase
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7w72
Q-score: 0.568
Zhang H, Su J, Li B, Gao Y, Liu M, He L, Xu H, Dong Y, Zhang XC, Zhao Y
Nat Struct Mol Biol (2022) 29 pp. 203-209 [ Pubmed: 35165458 DOI: doi:10.1038/s41594-022-00726-6 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Phosphatidylinositol glycan anchor biosynthesis class u protein (48 kDa, Protein from Homo sapiens)
- Human glycosylphosphatidylinositol transamidase (Complex from Homo sapiens)
- [2-[[(2~{r})-2-hexanoyloxy-3-[(~{e})-hex-3-enoxy]propoxy]-oxidanyl-phosphoryl]oxy-3,4,5,6-tetrakis(oxidanyl)phenyl] (2~{e},4~{e})-hepta-2,4-dienoate (622 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Glycosylphosphatidylinositol anchor attachment 1 protein (67 kDa, Protein from Homo sapiens)
- Gpi transamidase component pig-s (59 kDa, Protein from Homo sapiens)
- Gpi-anchor transamidase (45 kDa, Protein from Homo sapiens)
- Gpi transamidase component pig-t (60 kDa, Protein from Homo sapiens)