Cryo-EM structure of SARS-CoV-2 spike in complex with VHH14
Resolution: 4.6 Å
EM Method: Single-particle
Fitted PDBs: 7xy3
Q-score: 0.278
Wang K, Cao D, Liu L, Fan X, Wang H, Zhang X, Yang P
To Be Published
- Vhh14 (Complex from Camelus bactrianus)
- Sars-cov-2 spike in complex with vhh14 (Complex)
- Sars-cov-2 spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (125 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Vhh14 (17 kDa, Protein from Camelus bactrianus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of SARS-CoV-2 spike in complex with VHH21
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7xy4
Q-score: 0.43
Wang K, Cao D, Liu L, Fan X, Wang H, Zhang X, Yang P
To Be Published
- Vhh21 (16 kDa, Protein from Camelus bactrianus)
- Spike glycoprotein (125 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike in complex with vhh21 (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Vhh21 (Complex from Camelus bactrianus)
SARS-CoV-2 WT Spike in complex with R15 Fab and P14 Nanobody
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7y0n
Q-score: 0.333
To Be Published
- Heavy chain of r15-f7 (12 kDa, Protein from Homo sapiens)
- Spike glycoprotein (127 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- P14 (Complex from Homo sapiens)
- P14 nanobody (13 kDa, Protein from Vicugna pacos)
- R15-f7 (Complex)
- Complex of sars-cov-2 spike in complex with r15-f7 and p14-f18-35 (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Light chain of r15-f7 (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike (Complex from Vicugna pacos)
SARS Cov2 Spike RBD in complex with Fab47
Resolution: 2.64 Å
EM Method: Single-particle
Fitted PDBs: 8a95
Q-score: 0.269
Pushparaj P, Nicoletto A, Sheward DJ, Das H, Castro Dopico X, Perez Vidakovics L, Hanke L, Chernyshev M, Narang S, Kim S, Fischbach J, Ekstrom S, McInerney G, Hallberg BM, Murrell B, Corcoran M, Karlsson Hedestam GB
Immunity (2023) 56 pp. 193-206.e7 [ Pubmed: 36574772 DOI: doi:10.1016/j.immuni.2022.12.005 ]
- Fab47 (light chain variable domain) (11 kDa, Protein from Homo sapiens)
- Fab47 (heavy chain variable domain) (13 kDa, Protein from Homo sapiens)
- Sars-cov2 trimeric spike in 1-up conformation in complex with three fab47 (142 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- Sars-cov-2 spike in complex with fab47 (629 MDa, Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS CoV2 Spike in the 2-up state in complex with Fab47
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 8a94
Q-score: 0.303
Pushparaj P, Nicoletto A, Sheward DJ, Das H, Castro Dopico X, Perez Vidakovics L, Hanke L, Chernyshev M, Narang S, Kim S, Fischbach J, Ekstrom S, McInerney G, Hallberg BM, Murrell B, Corcoran M, Karlsson Hedestam GB
Immunity (2023) 56 pp. 193-206.e7 [ Pubmed: 36574772 DOI: doi:10.1016/j.immuni.2022.12.005 ]
- Sars-cov2 spike in 2-up conformation in complex with fab47 (142 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- Sars-cov-2 spike in complex with fab47 (629 MDa, Complex from Homo sapiens)
- Fab47 (light chain variable domain) (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Fab47 (heavy chain variable domain) (13 kDa, Protein from Homo sapiens)
Cryo-EM structure of SARS-CoV-2 spike glycoprotein in complex with three F61 Fab
Resolution: 3.62 Å
EM Method: Single-particle
Fitted PDBs: 7xmx
Q-score: -0.013
Li X, Pan Y, Yin Q, Wang Z, Shan S, Zhang L, Yu J, Qu Y, Sun L, Gui F, Lu J, Jing Z, Wu W, Huang T, Shi X, Li J, Li X, Li D, Wang S, Yang M, Zhang L, Duan K, Liang M, Yang X, Wang X
Cell Discov (2022) 8 pp. 87-87 [ DOI: doi:10.1038/s41421-022-00449-4 Pubmed: 36075908 ]
- F61 heavy chain (12 kDa, Protein from Homo sapiens)
- F61 light chain (11 kDa, Protein from Homo sapiens)
- S protein of sars-cov-2 spike in complex with f61 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (143 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of SARS-CoV-2 spike glycoprotein in complex with three D2 Fab
Resolution: 3.25 Å
EM Method: Single-particle
Fitted PDBs: 7xmz
Q-score: 0.384
Li X, Pan Y, Yin Q, Wang Z, Shan S, Zhang L, Yu J, Qu Y, Sun L, Gui F, Lu J, Jing Z, Wu W, Huang T, Shi X, Li J, Li X, Li D, Wang S, Yang M, Zhang L, Duan K, Liang M, Yang X, Wang X
Cell Discov (2022) 8 pp. 87-87 [ DOI: doi:10.1038/s41421-022-00449-4 Pubmed: 36075908 ]
- S protein of sars-cov-2 spike in complex with d2 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (143 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- D2 heavy chain (13 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- D2 light chain (11 kDa, Protein from Homo sapiens)
SARS-CoV-2 spike in complex with AHB2-2GS-SB175
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7uhc
Q-score: 0.465
Hunt AC, Case JB, Park YJ, Cao L, Wu K, Walls AC, Liu Z, Bowen JE, Yeh HW, Saini S, Helms L, Zhao YT, Hsiang TY, Starr TN, Goreshnik I, Kozodoy L, Carter L, Ravichandran R, Green LB, Matochko WL, Thomson CA, Vogeli B, Kruger A, VanBlargan LA, Chen RE, Ying B, Bailey AL, Kafai NM, Boyken SE, Ljubetic A, Edman N, Ueda G, Chow CM, Johnson M, Addetia A, Navarro MJ, Panpradist N, Gale Jr M, Freedman BS, Bloom JD, Ruohola-Baker H, Whelan SPJ, Stewart L, Diamond MS, Veesler D, Jewett MC, Baker D
Sci Transl Med (2022) 14 pp. eabn1252-eabn1252 [ DOI: doi:10.1126/scitranslmed.abn1252 Pubmed: 35412328 ]
- Multivalent miniprotein inhibitor ahb2-2gs-sb175 (17 kDa, Protein from synthetic construct)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Multivalent miniprotein inhibitor ahb2-2gs-sb175 (Complex from Synthetic construct)
- Sars-cov-2 hexapro spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 spike in complex with multivalent minibinder ahb2-2gs-sb175 (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 4.18 Å
EM Method: Single-particle
Fitted PDBs: 7rq6
Q-score: 0.33
Beaudoin-Bussieres G, Chen Y, Ullah I, Prevost J, Tolbert WD, Symmes K, Ding S, Benlarbi M, Gong SY, Tauzin A, Gasser R, Chatterjee D, Vezina D, Goyette G, Richard J, Zhou F, Stamatatos L, McGuire AT, Charest H, Roger M, Pozharski E, Kumar P, Mothes W, Uchil PD, Pazgier M, Finzi A
Cell Rep (2022) 38 pp. 110368-110368 [ Pubmed: 35123652 DOI: doi:10.1016/j.celrep.2022.110368 ]
- Cv3-13 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Cv3-13 fab light chain (23 kDa, Protein from Homo sapiens)
- Cryo-em structure of sars-cov-2 spike in complex with non-neutralizing, ntd-directed human antibody cv3-13 (670 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 3.34 Å
EM Method: Single-particle
Fitted PDBs: 7fjo
Q-score: 0.106
Liang Q, Wang Y, Zhang S, Sun J, Sun W, Li J, Liu Y, Li M, Cheng L, Jiang Y, Wang R, Zhang R, Yang Z, Ren Y, Chen P, Gao P, Yan H, Zhang Z, Zhang Q, Shi X, Wang J, Liu W, Wang X, Ying B, Zhao J, Qi H, Zhang L
iScience (2022) 25 pp. 104043-104043 [ Pubmed: 35291264 DOI: doi:10.1016/j.isci.2022.104043 ]
- T6 fab (Complex from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S protein of south african (b.1.351) sars-cov-2 spike (Complex)
- T6 light chain (24 kDa, Protein from Homo sapiens)
- S protein of south african (b.1.351) sars-cov-2 spike in complex with t6 fab (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- T6 heavy chain (23 kDa, Protein from Homo sapiens)