SARS-CoV-2 BA.1 spike RBD in complex bound with VacBB-639
Resolution: 4.19 Å
EM Method: Single-particle
Fitted PDBs: 8xrq
Q-score: 0.21
To Be Published
- Complex of sars-cov-2 spike rbd and vacbb-639 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of vacbb 639 fab (11 kDa, Protein from Homo sapiens)
- Heavy chain of vacbb 639 fab (13 kDa, Protein from Homo sapiens)
- Spike protein s1 (25 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Vacbb-639 (Complex)
- Sars-cov-2 spike rbd (Complex from Homo sapiens)
SARS-CoV-2 BA.2 spike RBD in complex bound with VacBB-551
Resolution: 2.66 Å
EM Method: Single-particle
Fitted PDBs: 8gs9
Q-score: 0.495
Ju B, Fan Q, Liu C, Shen S, Wang M, Guo H, Zhou B, Ge X, Zhang Z
Cell Rep (2023) 42 pp. 112532-112532 [ DOI: doi:10.1016/j.celrep.2023.112532 Pubmed: 37219999 ]
- Heavy chain of vacbb-551 (12 kDa, Protein from Homo sapiens)
- Spike glycoprotein (20 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Light chain of vacbb-551 (10 kDa, Protein from Homo sapiens)
- Complex of sars-cov-2 spike rbd and vacbb-551 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike rbd (Complex from Homo sapiens)
- Vacbb-551 (Complex)
SARS-CoV-2 S trimer in complex with 1F Fab
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7y7j
Q-score: 0.383
Zhao S, Liu F, Qiu S, Lan Q, Wu Y, Xu W, Ke J, Yang J, Liu X, Wang K, Guo H, Xia S, Zhang F, Wang J, Hu X, Lu L, Jiang S, Zhao S, Liu L, Xie Y, Yang X, Wang H, Zhong G
Protein Cell (2023) 14 pp. 74-78 [ Pubmed: 36726762 DOI: doi:10.1093/procel/pwac042 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike glycoprotein complex with 1f fab (Complex)
- 1f vl (11 kDa, Protein from Homo sapiens)
- 1f fab (Complex from Homo sapiens)
- Sars-cov-2 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- 1f vh (14 kDa, Protein from Homo sapiens)
Camel nanobodies 7A3 and 8A2 broadly neutralize SARS-CoV-2 variants
Resolution: 2.39 Å
EM Method: Single-particle
Fitted PDBs: 7tpr
Q-score: 0.407
Hong J, Kwon HJ, Cachau R, Chen CZ, Dandey VP, Martin N, Esposito D, Ortega-Rodriguez U, Xu M, Borgnia MJ, Xie H, Ho M
bioRxiv (2021) [ DOI: doi:10.1101/2021.10.27.465996 Pubmed: 34751270 ]
- Spike glycoprotein (126 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Camel nanobody 8a2 (Complex from Camelus dromedarius)
- Ternary complex of sars-cov-2 spike protein ectodomain (wuhan strain) and camel nanobodies 7a3 and 8a2. (17 kDa, Complex)
- Nanobody 8a2 (13 kDa, Protein from Camelus dromedarius)
- Camel nanobody 7a3 (Complex from Camelus dromedarius)
- Sars-cov-2 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Nanobody 7a3 (13 kDa, Protein from Camelus dromedarius)
SARS-CoV-2 Spike in complex with Fab of m31A7
Resolution: 4.7 Å
EM Method: Single-particle
Fitted PDBs: 7wuh
Q-score: 0.245
Huang HY, Liao HY, Chen X, Wang SW, Cheng CW, Shahed-Al-Mahmud M, Liu YM, Mohapatra A, Chen TH, Lo JM, Wu YM, Ma HH, Chang YH, Tsai HY, Chou YC, Hsueh YP, Tsai CY, Huang PY, Chang SY, Chao TL, Kao HC, Tsai YM, Chen YH, Wu CY, Jan JT, Cheng TR, Lin KI, Ma C, Wong CH
Sci Transl Med (2022) 14 pp. eabm0899-eabm0899 [ Pubmed: 35230146 DOI: doi:10.1126/scitranslmed.abm0899 ]
- Sars-cov2 spike (Complex from Homo sapiens)
- M31a7 fab heavy chain (25 kDa, Protein from Homo sapiens)
- M31a7 (Complex)
- Spike glycoprotein (137 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- M31a7 fab light chain (26 kDa, Protein from Homo sapiens)
- Sars-cov2 spike in complex with m31a7 (560 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Continuous motion of SARS-COV-2 spike protein receptor binding domain. Movement model 1.
Nat Methods (2021) 18 pp. 930-936 [ Pubmed: 34326541 DOI: doi:10.1038/s41592-021-01220-5 ]
Continuous motion of SARS-COV-2 spike protein receptor binding domain. Movement model 2.
Nat Methods (2021) 18 pp. 930-936 [ Pubmed: 34326541 DOI: doi:10.1038/s41592-021-01220-5 ]
SARS-CoV-2 S with NB21 nanobody
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7n9b
Q-score: 0.454
Sun D, Sang Z, Kim YJ, Xiang Y, Cohen T, Belford AK, Huet A, Conway JF, Sun J, Taylor DJ, Schneidman-Duhovny D, Zhang C, Huang W, Shi Y
Nat Commun (2021) 12 pp. 4676- [ DOI: doi:10.1038/s41467-021-24963-3 ]
- Nb21 nanobody (15 kDa, Protein from Lama glama)
- Spike glycoprotein (152 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Nanobody nb21 (Complex from Lama glama)
- Sars cov 2 spike s with nanobody nb21 (Complex)
- Sars cov 2 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 3.52 Å
EM Method: Single-particle
Fitted PDBs: 7n9e
Q-score: 0.448
Sun D, Sang Z, Kim YJ, Xiang Y, Cohen T, Belford AK, Huet A, Conway JF, Sun J, Taylor DJ, Schneidman-Duhovny D, Zhang C, Huang W, Shi Y
Nat Commun (2021) 12 pp. 4676- [ DOI: doi:10.1038/s41467-021-24963-3 ]
- Spike glycoprotein (152 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Nb34 nanobody (16 kDa, Protein from Lama glama)
- Sars cov 2 spike s (Complex from Severe acute respiratory syndrome coronavirus 2)
- Nanobody nb34 (Complex from Lama glama)
- Sars cov 2 spike s with nanobody nb34 (Complex)
EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-40 Fab
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7nd3
Q-score: 0.363
Dejnirattisai W, Zhou D, Ginn HM, Duyvesteyn HME, Supasa P, Case JB, Zhao Y, Walter TS, Mentzer AJ, Liu C, Wang B, Paesen GC, Slon-Campos J, Lopez-Camacho C, Kafai NM, Bailey AL, Chen RE, Ying B, Thompson C, Bolton J, Fyfe A, Gupta S, Tan TK, Gilbert-Jaramillo J, James W, Knight M, Carroll MW, Skelly D, Dold C, Peng Y, Levin R, Dong T, Pollard AJ, Knight JC, Klenerman P, Temperton N, Hall DR, Williams MA, Paterson NG, Bertram FKR, Siebert CA, Clare DK, Howe A, Radecke J, Song Y, Townsend AR, Huang KA, Fry EE, Mongkolsapaya J, Diamond MS, Ren J, Stuart DI, Screaton GR
Cell (2021) 184 pp. 2183- [ Pubmed: 33756110 DOI: doi:10.1016/j.cell.2021.02.032 ]
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Covox-40 fab (Complex from Homo sapiens)
- Sars-cov-2 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Complex of sars-cov-2 spike glycoprotein with covox-40 fab (488 kDa, Complex)
- Covox-40 light chain (24 kDa, Protein from Homo sapiens)
- Covox-40 heavy chain (25 kDa, Protein from Homo sapiens)